Diel rewiring and positive selection of ancient plant proteins enabled evolution of CAM photosynthesis in Agave View Full Text


Ontology type: schema:ScholarlyArticle      Open Access: True


Article Info

DATE

2018-12

AUTHORS

Hengfu Yin, Hao-Bo Guo, David J. Weston, Anne M. Borland, Priya Ranjan, Paul E. Abraham, Sara S. Jawdy, James Wachira, Gerald A. Tuskan, Timothy J. Tschaplinski, Stan D. Wullschleger, Hong Guo, Robert L. Hettich, Stephen M. Gross, Zhong Wang, Axel Visel, Xiaohan Yang

ABSTRACT

BACKGROUND: Crassulacean acid metabolism (CAM) enhances plant water-use efficiency through an inverse day/night pattern of stomatal closure/opening that facilitates nocturnal CO2 uptake. CAM has evolved independently in over 35 plant lineages, accounting for ~ 6% of all higher plants. Agave species are highly heat- and drought-tolerant, and have been domesticated as model CAM crops for beverage, fiber, and biofuel production in semi-arid and arid regions. However, the genomic basis of evolutionary innovation of CAM in genus Agave is largely unknown. RESULTS: Using an approach that integrated genomics, gene co-expression networks, comparative genomics and protein structure analyses, we investigated the molecular evolution of CAM as exemplified in Agave. Comparative genomics analyses among C3, C4 and CAM species revealed that core metabolic components required for CAM have ancient genomic origins traceable to non-vascular plants while regulatory proteins required for diel re-programming of metabolism have a more recent origin shared among C3, C4 and CAM species. We showed that accelerated evolution of key functional domains in proteins responsible for primary metabolism and signaling, together with a diel re-programming of the transcription of genes involved in carbon fixation, carbohydrate processing, redox homeostasis, and circadian control is required for the evolution of CAM in Agave. Furthermore, we highlighted the potential candidates contributing to the adaptation of CAM functional modules. CONCLUSIONS: This work provides evidence of adaptive evolution of CAM related pathways. We showed that the core metabolic components required for CAM are shared by non-vascular plants, but regulatory proteins involved in re-reprogramming of carbon fixation and metabolite transportation appeared more recently. We propose that the accelerated evolution of key proteins together with a diel re-programming of gene expression were required for CAM evolution from C3 ancestors in Agave. More... »

PAGES

588

References to SciGraph publications

  • 2014-02. Temperature response of photosynthesis in C3, C4, and CAM plants: temperature acclimation and temperature adaptation in PHOTOSYNTHESIS RESEARCH
  • 2017-12. The Kalanchoë genome provides insights into convergent evolution and building blocks of crassulacean acid metabolism in NATURE COMMUNICATIONS
  • 2010-04. I-TASSER: a unified platform for automated protein structure and function prediction in NATURE PROTOCOLS
  • 2008-12. WGCNA: an R package for weighted correlation network analysis in BMC BIOINFORMATICS
  • 2015-01. The genome sequence of the orchid Phalaenopsis equestris in NATURE GENETICS
  • 2012-03. Potential of Plants from the Genus Agave as Bioenergy Crops in BIOENERGY RESEARCH
  • 2010-02. Stomatal Opening Mechanism of CAM Plants in JOURNAL OF PLANT BIOLOGY
  • 2015-12. The pineapple genome and the evolution of CAM photosynthesis in NATURE GENETICS
  • 2013-12. De novo transcriptome assembly of drought tolerant CAM plants, Agave deserti and Agave tequilana in BMC GENOMICS
  • 2013-12. PlantTFcat: an online plant transcription factor and transcriptional regulator categorization and analysis tool in BMC BIOINFORMATICS
  • 2013-06. The circadian clock goes genomic in GENOME BIOLOGY
  • 2010-02. Strong Positive Selection Drives Rapid Diversification of R-Genes in Arabidopsis Relatives in JOURNAL OF MOLECULAR EVOLUTION
  • 2007-12. Widespread positive selection in the photosynthetic Rubisco enzyme in BMC EVOLUTIONARY BIOLOGY
  • 2011-01-27. Circadian rhythms persist without transcription in a eukaryote in NATURE
  • 2009-12. BLAST+: architecture and applications in BMC BIOINFORMATICS
  • 2016-12. Transcript, protein and metabolite temporal dynamics in the CAM plant Agave in NATURE PLANTS
  • Identifiers

    URI

    http://scigraph.springernature.com/pub.10.1186/s12864-018-4964-7

    DOI

    http://dx.doi.org/10.1186/s12864-018-4964-7

    DIMENSIONS

    https://app.dimensions.ai/details/publication/pub.1106015038

    PUBMED

    https://www.ncbi.nlm.nih.gov/pubmed/30081833


    Indexing Status Check whether this publication has been indexed by Scopus and Web Of Science using the SN Indexing Status Tool
    Incoming Citations Browse incoming citations for this publication using opencitations.net

    JSON-LD is the canonical representation for SciGraph data.

    TIP: You can open this SciGraph record using an external JSON-LD service: JSON-LD Playground Google SDTT

    [
      {
        "@context": "https://springernature.github.io/scigraph/jsonld/sgcontext.json", 
        "about": [
          {
            "id": "http://purl.org/au-research/vocabulary/anzsrc-for/2008/0604", 
            "inDefinedTermSet": "http://purl.org/au-research/vocabulary/anzsrc-for/2008/", 
            "name": "Genetics", 
            "type": "DefinedTerm"
          }, 
          {
            "id": "http://purl.org/au-research/vocabulary/anzsrc-for/2008/06", 
            "inDefinedTermSet": "http://purl.org/au-research/vocabulary/anzsrc-for/2008/", 
            "name": "Biological Sciences", 
            "type": "DefinedTerm"
          }, 
          {
            "inDefinedTermSet": "https://www.nlm.nih.gov/mesh/", 
            "name": "Agave", 
            "type": "DefinedTerm"
          }, 
          {
            "inDefinedTermSet": "https://www.nlm.nih.gov/mesh/", 
            "name": "Carbon", 
            "type": "DefinedTerm"
          }, 
          {
            "inDefinedTermSet": "https://www.nlm.nih.gov/mesh/", 
            "name": "Carbon Cycle", 
            "type": "DefinedTerm"
          }, 
          {
            "inDefinedTermSet": "https://www.nlm.nih.gov/mesh/", 
            "name": "Evolution, Molecular", 
            "type": "DefinedTerm"
          }, 
          {
            "inDefinedTermSet": "https://www.nlm.nih.gov/mesh/", 
            "name": "Gene Expression Profiling", 
            "type": "DefinedTerm"
          }, 
          {
            "inDefinedTermSet": "https://www.nlm.nih.gov/mesh/", 
            "name": "Gene Regulatory Networks", 
            "type": "DefinedTerm"
          }, 
          {
            "inDefinedTermSet": "https://www.nlm.nih.gov/mesh/", 
            "name": "Genomics", 
            "type": "DefinedTerm"
          }, 
          {
            "inDefinedTermSet": "https://www.nlm.nih.gov/mesh/", 
            "name": "Models, Molecular", 
            "type": "DefinedTerm"
          }, 
          {
            "inDefinedTermSet": "https://www.nlm.nih.gov/mesh/", 
            "name": "Photosynthesis", 
            "type": "DefinedTerm"
          }, 
          {
            "inDefinedTermSet": "https://www.nlm.nih.gov/mesh/", 
            "name": "Phylogeny", 
            "type": "DefinedTerm"
          }, 
          {
            "inDefinedTermSet": "https://www.nlm.nih.gov/mesh/", 
            "name": "Plant Proteins", 
            "type": "DefinedTerm"
          }, 
          {
            "inDefinedTermSet": "https://www.nlm.nih.gov/mesh/", 
            "name": "Protein Structure, Secondary", 
            "type": "DefinedTerm"
          }
        ], 
        "author": [
          {
            "affiliation": {
              "alternateName": "Chinese Academy of Forestry", 
              "id": "https://www.grid.ac/institutes/grid.216566.0", 
              "name": [
                "Biosciences Division, Oak Ridge National Laboratory, 37831, Oak Ridge, TN, USA", 
                "Present address: Research Institute of Subtropical Forestry, Chinese Academy of Forestry, 311400, Zhejiang, Hangzhou, China"
              ], 
              "type": "Organization"
            }, 
            "familyName": "Yin", 
            "givenName": "Hengfu", 
            "id": "sg:person.0716577125.79", 
            "sameAs": [
              "https://app.dimensions.ai/discover/publication?and_facet_researcher=ur.0716577125.79"
            ], 
            "type": "Person"
          }, 
          {
            "affiliation": {
              "alternateName": "University of Tennessee at Knoxville", 
              "id": "https://www.grid.ac/institutes/grid.411461.7", 
              "name": [
                "Department of Biology, University of Tennessee, 37996, Knoxville, TN, USA"
              ], 
              "type": "Organization"
            }, 
            "familyName": "Guo", 
            "givenName": "Hao-Bo", 
            "id": "sg:person.01165414747.65", 
            "sameAs": [
              "https://app.dimensions.ai/discover/publication?and_facet_researcher=ur.01165414747.65"
            ], 
            "type": "Person"
          }, 
          {
            "affiliation": {
              "alternateName": "Oak Ridge National Laboratory", 
              "id": "https://www.grid.ac/institutes/grid.135519.a", 
              "name": [
                "Biosciences Division, Oak Ridge National Laboratory, 37831, Oak Ridge, TN, USA"
              ], 
              "type": "Organization"
            }, 
            "familyName": "Weston", 
            "givenName": "David J.", 
            "id": "sg:person.0617015075.10", 
            "sameAs": [
              "https://app.dimensions.ai/discover/publication?and_facet_researcher=ur.0617015075.10"
            ], 
            "type": "Person"
          }, 
          {
            "affiliation": {
              "alternateName": "Newcastle University", 
              "id": "https://www.grid.ac/institutes/grid.1006.7", 
              "name": [
                "Biosciences Division, Oak Ridge National Laboratory, 37831, Oak Ridge, TN, USA", 
                "School of Natural and Environmental Sciences, Newcastle University, NE1 7RU, Newcastle upon Tyne, UK"
              ], 
              "type": "Organization"
            }, 
            "familyName": "Borland", 
            "givenName": "Anne M.", 
            "id": "sg:person.01067310355.38", 
            "sameAs": [
              "https://app.dimensions.ai/discover/publication?and_facet_researcher=ur.01067310355.38"
            ], 
            "type": "Person"
          }, 
          {
            "affiliation": {
              "alternateName": "Oak Ridge National Laboratory", 
              "id": "https://www.grid.ac/institutes/grid.135519.a", 
              "name": [
                "Biosciences Division, Oak Ridge National Laboratory, 37831, Oak Ridge, TN, USA", 
                "DOE-Center for Bioenergy Innovation (CBI), Oak Ridge National Laboratory, 37831, Oak Ridge, TN, USA"
              ], 
              "type": "Organization"
            }, 
            "familyName": "Ranjan", 
            "givenName": "Priya", 
            "id": "sg:person.0665130275.40", 
            "sameAs": [
              "https://app.dimensions.ai/discover/publication?and_facet_researcher=ur.0665130275.40"
            ], 
            "type": "Person"
          }, 
          {
            "affiliation": {
              "alternateName": "Oak Ridge National Laboratory", 
              "id": "https://www.grid.ac/institutes/grid.135519.a", 
              "name": [
                "DOE-Center for Bioenergy Innovation (CBI), Oak Ridge National Laboratory, 37831, Oak Ridge, TN, USA", 
                "Chemical Sciences Division, Oak Ridge National Laboratory, 37831, Oak Ridge, TN, USA"
              ], 
              "type": "Organization"
            }, 
            "familyName": "Abraham", 
            "givenName": "Paul E.", 
            "id": "sg:person.0763247566.81", 
            "sameAs": [
              "https://app.dimensions.ai/discover/publication?and_facet_researcher=ur.0763247566.81"
            ], 
            "type": "Person"
          }, 
          {
            "affiliation": {
              "alternateName": "Oak Ridge National Laboratory", 
              "id": "https://www.grid.ac/institutes/grid.135519.a", 
              "name": [
                "Biosciences Division, Oak Ridge National Laboratory, 37831, Oak Ridge, TN, USA", 
                "DOE-Center for Bioenergy Innovation (CBI), Oak Ridge National Laboratory, 37831, Oak Ridge, TN, USA"
              ], 
              "type": "Organization"
            }, 
            "familyName": "Jawdy", 
            "givenName": "Sara S.", 
            "id": "sg:person.01145145713.79", 
            "sameAs": [
              "https://app.dimensions.ai/discover/publication?and_facet_researcher=ur.01145145713.79"
            ], 
            "type": "Person"
          }, 
          {
            "affiliation": {
              "alternateName": "Morgan State University", 
              "id": "https://www.grid.ac/institutes/grid.260238.d", 
              "name": [
                "Department of Biology, Morgan State University, 21251, Baltimore, MD, USA"
              ], 
              "type": "Organization"
            }, 
            "familyName": "Wachira", 
            "givenName": "James", 
            "id": "sg:person.01312077772.39", 
            "sameAs": [
              "https://app.dimensions.ai/discover/publication?and_facet_researcher=ur.01312077772.39"
            ], 
            "type": "Person"
          }, 
          {
            "affiliation": {
              "alternateName": "Oak Ridge National Laboratory", 
              "id": "https://www.grid.ac/institutes/grid.135519.a", 
              "name": [
                "Biosciences Division, Oak Ridge National Laboratory, 37831, Oak Ridge, TN, USA", 
                "DOE-Center for Bioenergy Innovation (CBI), Oak Ridge National Laboratory, 37831, Oak Ridge, TN, USA"
              ], 
              "type": "Organization"
            }, 
            "familyName": "Tuskan", 
            "givenName": "Gerald A.", 
            "id": "sg:person.0733243475.32", 
            "sameAs": [
              "https://app.dimensions.ai/discover/publication?and_facet_researcher=ur.0733243475.32"
            ], 
            "type": "Person"
          }, 
          {
            "affiliation": {
              "alternateName": "Oak Ridge National Laboratory", 
              "id": "https://www.grid.ac/institutes/grid.135519.a", 
              "name": [
                "Biosciences Division, Oak Ridge National Laboratory, 37831, Oak Ridge, TN, USA", 
                "DOE-Center for Bioenergy Innovation (CBI), Oak Ridge National Laboratory, 37831, Oak Ridge, TN, USA"
              ], 
              "type": "Organization"
            }, 
            "familyName": "Tschaplinski", 
            "givenName": "Timothy J.", 
            "id": "sg:person.01015172225.11", 
            "sameAs": [
              "https://app.dimensions.ai/discover/publication?and_facet_researcher=ur.01015172225.11"
            ], 
            "type": "Person"
          }, 
          {
            "affiliation": {
              "alternateName": "Oak Ridge National Laboratory", 
              "id": "https://www.grid.ac/institutes/grid.135519.a", 
              "name": [
                "Environmental Sciences Division, Oak Ridge National Laboratory, 37831, Oak Ridge, TN, USA"
              ], 
              "type": "Organization"
            }, 
            "familyName": "Wullschleger", 
            "givenName": "Stan D.", 
            "id": "sg:person.01052354760.27", 
            "sameAs": [
              "https://app.dimensions.ai/discover/publication?and_facet_researcher=ur.01052354760.27"
            ], 
            "type": "Person"
          }, 
          {
            "affiliation": {
              "alternateName": "University of Tennessee at Knoxville", 
              "id": "https://www.grid.ac/institutes/grid.411461.7", 
              "name": [
                "Department of Biology, University of Tennessee, 37996, Knoxville, TN, USA"
              ], 
              "type": "Organization"
            }, 
            "familyName": "Guo", 
            "givenName": "Hong", 
            "id": "sg:person.01203457443.14", 
            "sameAs": [
              "https://app.dimensions.ai/discover/publication?and_facet_researcher=ur.01203457443.14"
            ], 
            "type": "Person"
          }, 
          {
            "affiliation": {
              "alternateName": "Oak Ridge National Laboratory", 
              "id": "https://www.grid.ac/institutes/grid.135519.a", 
              "name": [
                "DOE-Center for Bioenergy Innovation (CBI), Oak Ridge National Laboratory, 37831, Oak Ridge, TN, USA", 
                "Chemical Sciences Division, Oak Ridge National Laboratory, 37831, Oak Ridge, TN, USA"
              ], 
              "type": "Organization"
            }, 
            "familyName": "Hettich", 
            "givenName": "Robert L.", 
            "id": "sg:person.01233336244.31", 
            "sameAs": [
              "https://app.dimensions.ai/discover/publication?and_facet_researcher=ur.01233336244.31"
            ], 
            "type": "Person"
          }, 
          {
            "affiliation": {
              "alternateName": "Illumina (United States)", 
              "id": "https://www.grid.ac/institutes/grid.185669.5", 
              "name": [
                "DOE Joint Genome Institute, 94598, Walnut Creek, CA, USA", 
                "Present address: Illumina, Inc., 92122, San Diego, CA, USA"
              ], 
              "type": "Organization"
            }, 
            "familyName": "Gross", 
            "givenName": "Stephen M.", 
            "id": "sg:person.0624601107.74", 
            "sameAs": [
              "https://app.dimensions.ai/discover/publication?and_facet_researcher=ur.0624601107.74"
            ], 
            "type": "Person"
          }, 
          {
            "affiliation": {
              "alternateName": "Lawrence Berkeley National Laboratory", 
              "id": "https://www.grid.ac/institutes/grid.184769.5", 
              "name": [
                "DOE Joint Genome Institute, 94598, Walnut Creek, CA, USA", 
                "School of Natural Sciences, University of California, 95343, Merced, CA, USA", 
                "Environmental Genomics and Systems Biology Division, Lawrence Berkeley National Laboratory, 94720, Berkeley, CA, USA"
              ], 
              "type": "Organization"
            }, 
            "familyName": "Wang", 
            "givenName": "Zhong", 
            "id": "sg:person.01273706575.10", 
            "sameAs": [
              "https://app.dimensions.ai/discover/publication?and_facet_researcher=ur.01273706575.10"
            ], 
            "type": "Person"
          }, 
          {
            "affiliation": {
              "alternateName": "Lawrence Berkeley National Laboratory", 
              "id": "https://www.grid.ac/institutes/grid.184769.5", 
              "name": [
                "DOE Joint Genome Institute, 94598, Walnut Creek, CA, USA", 
                "School of Natural Sciences, University of California, 95343, Merced, CA, USA", 
                "Environmental Genomics and Systems Biology Division, Lawrence Berkeley National Laboratory, 94720, Berkeley, CA, USA"
              ], 
              "type": "Organization"
            }, 
            "familyName": "Visel", 
            "givenName": "Axel", 
            "id": "sg:person.0714547316.57", 
            "sameAs": [
              "https://app.dimensions.ai/discover/publication?and_facet_researcher=ur.0714547316.57"
            ], 
            "type": "Person"
          }, 
          {
            "affiliation": {
              "alternateName": "Oak Ridge National Laboratory", 
              "id": "https://www.grid.ac/institutes/grid.135519.a", 
              "name": [
                "Biosciences Division, Oak Ridge National Laboratory, 37831, Oak Ridge, TN, USA", 
                "DOE-Center for Bioenergy Innovation (CBI), Oak Ridge National Laboratory, 37831, Oak Ridge, TN, USA"
              ], 
              "type": "Organization"
            }, 
            "familyName": "Yang", 
            "givenName": "Xiaohan", 
            "id": "sg:person.0736126360.28", 
            "sameAs": [
              "https://app.dimensions.ai/discover/publication?and_facet_researcher=ur.0736126360.28"
            ], 
            "type": "Person"
          }
        ], 
        "citation": [
          {
            "id": "https://doi.org/10.1016/j.febslet.2011.03.051", 
            "sameAs": [
              "https://app.dimensions.ai/details/publication/pub.1000405799"
            ], 
            "type": "CreativeWork"
          }, 
          {
            "id": "https://doi.org/10.1101/gr.1224503", 
            "sameAs": [
              "https://app.dimensions.ai/details/publication/pub.1000505228"
            ], 
            "type": "CreativeWork"
          }, 
          {
            "id": "https://doi.org/10.1093/oxfordjournals.molbev.a004037", 
            "sameAs": [
              "https://app.dimensions.ai/details/publication/pub.1000692400"
            ], 
            "type": "CreativeWork"
          }, 
          {
            "id": "https://doi.org/10.1002/1097-0134(20001115)41:3<415::aid-prot130>3.0.co;2-7", 
            "sameAs": [
              "https://app.dimensions.ai/details/publication/pub.1000807177"
            ], 
            "type": "CreativeWork"
          }, 
          {
            "id": "https://doi.org/10.1093/nar/30.7.1575", 
            "sameAs": [
              "https://app.dimensions.ai/details/publication/pub.1001067672"
            ], 
            "type": "CreativeWork"
          }, 
          {
            "id": "https://doi.org/10.1093/bioinformatics/btp101", 
            "sameAs": [
              "https://app.dimensions.ai/details/publication/pub.1001910376"
            ], 
            "type": "CreativeWork"
          }, 
          {
            "id": "sg:pub.10.1186/gb-2013-14-6-208", 
            "sameAs": [
              "https://app.dimensions.ai/details/publication/pub.1002634236", 
              "https://doi.org/10.1186/gb-2013-14-6-208"
            ], 
            "type": "CreativeWork"
          }, 
          {
            "id": "https://doi.org/10.1104/pp.104.054577", 
            "sameAs": [
              "https://app.dimensions.ai/details/publication/pub.1003062787"
            ], 
            "type": "CreativeWork"
          }, 
          {
            "id": "https://doi.org/10.1104/pp.111.179275", 
            "sameAs": [
              "https://app.dimensions.ai/details/publication/pub.1003106255"
            ], 
            "type": "CreativeWork"
          }, 
          {
            "id": "https://doi.org/10.1093/jxb/erp118", 
            "sameAs": [
              "https://app.dimensions.ai/details/publication/pub.1003259415"
            ], 
            "type": "CreativeWork"
          }, 
          {
            "id": "https://doi.org/10.1093/jxb/erp118", 
            "sameAs": [
              "https://app.dimensions.ai/details/publication/pub.1003259415"
            ], 
            "type": "CreativeWork"
          }, 
          {
            "id": "https://doi.org/10.1002/1097-0134(20010101)42:1<38::aid-prot50>3.0.co;2-3", 
            "sameAs": [
              "https://app.dimensions.ai/details/publication/pub.1003424819"
            ], 
            "type": "CreativeWork"
          }, 
          {
            "id": "https://doi.org/10.1111/nph.13393", 
            "sameAs": [
              "https://app.dimensions.ai/details/publication/pub.1005393453"
            ], 
            "type": "CreativeWork"
          }, 
          {
            "id": "https://doi.org/10.1101/gr.229202", 
            "sameAs": [
              "https://app.dimensions.ai/details/publication/pub.1006260064"
            ], 
            "type": "CreativeWork"
          }, 
          {
            "id": "sg:pub.10.1038/nprot.2010.5", 
            "sameAs": [
              "https://app.dimensions.ai/details/publication/pub.1006999469", 
              "https://doi.org/10.1038/nprot.2010.5"
            ], 
            "type": "CreativeWork"
          }, 
          {
            "id": "sg:pub.10.1038/nprot.2010.5", 
            "sameAs": [
              "https://app.dimensions.ai/details/publication/pub.1006999469", 
              "https://doi.org/10.1038/nprot.2010.5"
            ], 
            "type": "CreativeWork"
          }, 
          {
            "id": "https://doi.org/10.1093/nar/gks372", 
            "sameAs": [
              "https://app.dimensions.ai/details/publication/pub.1008927815"
            ], 
            "type": "CreativeWork"
          }, 
          {
            "id": "https://doi.org/10.1016/j.pbi.2016.03.019", 
            "sameAs": [
              "https://app.dimensions.ai/details/publication/pub.1011337203"
            ], 
            "type": "CreativeWork"
          }, 
          {
            "id": "https://doi.org/10.1016/j.pbi.2016.03.019", 
            "sameAs": [
              "https://app.dimensions.ai/details/publication/pub.1011337203"
            ], 
            "type": "CreativeWork"
          }, 
          {
            "id": "https://doi.org/10.1093/molbev/msw054", 
            "sameAs": [
              "https://app.dimensions.ai/details/publication/pub.1012564990"
            ], 
            "type": "CreativeWork"
          }, 
          {
            "id": "https://doi.org/10.1016/j.bbapap.2010.01.017", 
            "sameAs": [
              "https://app.dimensions.ai/details/publication/pub.1013191406"
            ], 
            "type": "CreativeWork"
          }, 
          {
            "id": "https://doi.org/10.1111/j.1757-1707.2010.01077.x", 
            "sameAs": [
              "https://app.dimensions.ai/details/publication/pub.1013415089"
            ], 
            "type": "CreativeWork"
          }, 
          {
            "id": "https://doi.org/10.1101/sqb.2007.72.006", 
            "sameAs": [
              "https://app.dimensions.ai/details/publication/pub.1014645434"
            ], 
            "type": "CreativeWork"
          }, 
          {
            "id": "https://doi.org/10.1093/bioinformatics/btl158", 
            "sameAs": [
              "https://app.dimensions.ai/details/publication/pub.1014668137"
            ], 
            "type": "CreativeWork"
          }, 
          {
            "id": "https://doi.org/10.1016/j.tplants.2014.01.006", 
            "sameAs": [
              "https://app.dimensions.ai/details/publication/pub.1015147408"
            ], 
            "type": "CreativeWork"
          }, 
          {
            "id": "sg:pub.10.1007/s11120-013-9874-6", 
            "sameAs": [
              "https://app.dimensions.ai/details/publication/pub.1015227170", 
              "https://doi.org/10.1007/s11120-013-9874-6"
            ], 
            "type": "CreativeWork"
          }, 
          {
            "id": "https://doi.org/10.1093/jxb/eru087", 
            "sameAs": [
              "https://app.dimensions.ai/details/publication/pub.1015551070"
            ], 
            "type": "CreativeWork"
          }, 
          {
            "id": "https://doi.org/10.1042/bst0310728", 
            "sameAs": [
              "https://app.dimensions.ai/details/publication/pub.1016409663"
            ], 
            "type": "CreativeWork"
          }, 
          {
            "id": "https://doi.org/10.1042/bst0310728", 
            "sameAs": [
              "https://app.dimensions.ai/details/publication/pub.1016409663"
            ], 
            "type": "CreativeWork"
          }, 
          {
            "id": "sg:pub.10.1038/nplants.2016.178", 
            "sameAs": [
              "https://app.dimensions.ai/details/publication/pub.1017642281", 
              "https://doi.org/10.1038/nplants.2016.178"
            ], 
            "type": "CreativeWork"
          }, 
          {
            "id": "sg:pub.10.1186/1471-2105-9-559", 
            "sameAs": [
              "https://app.dimensions.ai/details/publication/pub.1020312314", 
              "https://doi.org/10.1186/1471-2105-9-559"
            ], 
            "type": "CreativeWork"
          }, 
          {
            "id": "https://doi.org/10.1071/fp10084", 
            "sameAs": [
              "https://app.dimensions.ai/details/publication/pub.1021568520"
            ], 
            "type": "CreativeWork"
          }, 
          {
            "id": "sg:pub.10.1007/s12155-011-9159-x", 
            "sameAs": [
              "https://app.dimensions.ai/details/publication/pub.1022134198", 
              "https://doi.org/10.1007/s12155-011-9159-x"
            ], 
            "type": "CreativeWork"
          }, 
          {
            "id": "https://doi.org/10.1093/nar/gkl315", 
            "sameAs": [
              "https://app.dimensions.ai/details/publication/pub.1022769827"
            ], 
            "type": "CreativeWork"
          }, 
          {
            "id": "https://doi.org/10.1042/bst0330945", 
            "sameAs": [
              "https://app.dimensions.ai/details/publication/pub.1023144751"
            ], 
            "type": "CreativeWork"
          }, 
          {
            "id": "https://doi.org/10.1042/bst0330945", 
            "sameAs": [
              "https://app.dimensions.ai/details/publication/pub.1023144751"
            ], 
            "type": "CreativeWork"
          }, 
          {
            "id": "sg:pub.10.1007/s00239-009-9316-4", 
            "sameAs": [
              "https://app.dimensions.ai/details/publication/pub.1023315317", 
              "https://doi.org/10.1007/s00239-009-9316-4"
            ], 
            "type": "CreativeWork"
          }, 
          {
            "id": "sg:pub.10.1007/s00239-009-9316-4", 
            "sameAs": [
              "https://app.dimensions.ai/details/publication/pub.1023315317", 
              "https://doi.org/10.1007/s00239-009-9316-4"
            ], 
            "type": "CreativeWork"
          }, 
          {
            "id": "https://doi.org/10.1111/j.1365-313x.2004.02011.x", 
            "sameAs": [
              "https://app.dimensions.ai/details/publication/pub.1023333857"
            ], 
            "type": "CreativeWork"
          }, 
          {
            "id": "sg:pub.10.1186/1471-2148-7-73", 
            "sameAs": [
              "https://app.dimensions.ai/details/publication/pub.1024162838", 
              "https://doi.org/10.1186/1471-2148-7-73"
            ], 
            "type": "CreativeWork"
          }, 
          {
            "id": "https://doi.org/10.1093/bioinformatics/bts565", 
            "sameAs": [
              "https://app.dimensions.ai/details/publication/pub.1027022529"
            ], 
            "type": "CreativeWork"
          }, 
          {
            "id": "sg:pub.10.1038/nature09654", 
            "sameAs": [
              "https://app.dimensions.ai/details/publication/pub.1027529978", 
              "https://doi.org/10.1038/nature09654"
            ], 
            "type": "CreativeWork"
          }, 
          {
            "id": "https://doi.org/10.1146/annurev-arplant-042809-112122", 
            "sameAs": [
              "https://app.dimensions.ai/details/publication/pub.1027840715"
            ], 
            "type": "CreativeWork"
          }, 
          {
            "id": "https://doi.org/10.1046/j.1365-313x.1999.00609.x", 
            "sameAs": [
              "https://app.dimensions.ai/details/publication/pub.1029245793"
            ], 
            "type": "CreativeWork"
          }, 
          {
            "id": "https://doi.org/10.1016/s1360-1385(99)01543-5", 
            "sameAs": [
              "https://app.dimensions.ai/details/publication/pub.1030751438"
            ], 
            "type": "CreativeWork"
          }, 
          {
            "id": "https://doi.org/10.1093/nar/gkq291", 
            "sameAs": [
              "https://app.dimensions.ai/details/publication/pub.1032121658"
            ], 
            "type": "CreativeWork"
          }, 
          {
            "id": "https://doi.org/10.1093/bioinformatics/bti551", 
            "sameAs": [
              "https://app.dimensions.ai/details/publication/pub.1032806326"
            ], 
            "type": "CreativeWork"
          }, 
          {
            "id": "https://doi.org/10.1093/molbev/msq335", 
            "sameAs": [
              "https://app.dimensions.ai/details/publication/pub.1032920989"
            ], 
            "type": "CreativeWork"
          }, 
          {
            "id": "sg:pub.10.1038/ng.3435", 
            "sameAs": [
              "https://app.dimensions.ai/details/publication/pub.1034190490", 
              "https://doi.org/10.1038/ng.3435"
            ], 
            "type": "CreativeWork"
          }, 
          {
            "id": "https://doi.org/10.1093/nar/gku986", 
            "sameAs": [
              "https://app.dimensions.ai/details/publication/pub.1035567367"
            ], 
            "type": "CreativeWork"
          }, 
          {
            "id": "https://doi.org/10.1146/annurev.es.24.110193.002211", 
            "sameAs": [
              "https://app.dimensions.ai/details/publication/pub.1037531819"
            ], 
            "type": "CreativeWork"
          }, 
          {
            "id": "https://doi.org/10.1111/nph.12461", 
            "sameAs": [
              "https://app.dimensions.ai/details/publication/pub.1042192049"
            ], 
            "type": "CreativeWork"
          }, 
          {
            "id": "sg:pub.10.1186/1471-2164-14-563", 
            "sameAs": [
              "https://app.dimensions.ai/details/publication/pub.1044344394", 
              "https://doi.org/10.1186/1471-2164-14-563"
            ], 
            "type": "CreativeWork"
          }, 
          {
            "id": "https://doi.org/10.1093/molbev/mst010", 
            "sameAs": [
              "https://app.dimensions.ai/details/publication/pub.1045545793"
            ], 
            "type": "CreativeWork"
          }, 
          {
            "id": "https://doi.org/10.1093/bioinformatics/bti079", 
            "sameAs": [
              "https://app.dimensions.ai/details/publication/pub.1046797744"
            ], 
            "type": "CreativeWork"
          }, 
          {
            "id": "https://doi.org/10.1093/nar/25.17.3389", 
            "sameAs": [
              "https://app.dimensions.ai/details/publication/pub.1047265454"
            ], 
            "type": "CreativeWork"
          }, 
          {
            "id": "https://doi.org/10.1073/pnas.1832002100", 
            "sameAs": [
              "https://app.dimensions.ai/details/publication/pub.1047752831"
            ], 
            "type": "CreativeWork"
          }, 
          {
            "id": "sg:pub.10.1007/s12374-010-9097-8", 
            "sameAs": [
              "https://app.dimensions.ai/details/publication/pub.1048509675", 
              "https://doi.org/10.1007/s12374-010-9097-8"
            ], 
            "type": "CreativeWork"
          }, 
          {
            "id": "https://doi.org/10.1093/aob/mch087", 
            "sameAs": [
              "https://app.dimensions.ai/details/publication/pub.1049778033"
            ], 
            "type": "CreativeWork"
          }, 
          {
            "id": "https://doi.org/10.1073/pnas.0813035106", 
            "sameAs": [
              "https://app.dimensions.ai/details/publication/pub.1050382506"
            ], 
            "type": "CreativeWork"
          }, 
          {
            "id": "sg:pub.10.1186/1471-2105-10-421", 
            "sameAs": [
              "https://app.dimensions.ai/details/publication/pub.1050579230", 
              "https://doi.org/10.1186/1471-2105-10-421"
            ], 
            "type": "CreativeWork"
          }, 
          {
            "id": "https://doi.org/10.1093/bioinformatics/btq429", 
            "sameAs": [
              "https://app.dimensions.ai/details/publication/pub.1050802009"
            ], 
            "type": "CreativeWork"
          }, 
          {
            "id": "sg:pub.10.1038/ng.3149", 
            "sameAs": [
              "https://app.dimensions.ai/details/publication/pub.1051243070", 
              "https://doi.org/10.1038/ng.3149"
            ], 
            "type": "CreativeWork"
          }, 
          {
            "id": "https://doi.org/10.1016/s1093-3263(00)00138-8", 
            "sameAs": [
              "https://app.dimensions.ai/details/publication/pub.1051973135"
            ], 
            "type": "CreativeWork"
          }, 
          {
            "id": "https://doi.org/10.1093/nar/gkm321", 
            "sameAs": [
              "https://app.dimensions.ai/details/publication/pub.1052015517"
            ], 
            "type": "CreativeWork"
          }, 
          {
            "id": "https://doi.org/10.1104/pp.114.237107", 
            "sameAs": [
              "https://app.dimensions.ai/details/publication/pub.1052186322"
            ], 
            "type": "CreativeWork"
          }, 
          {
            "id": "sg:pub.10.1186/1471-2105-14-321", 
            "sameAs": [
              "https://app.dimensions.ai/details/publication/pub.1052802884", 
              "https://doi.org/10.1186/1471-2105-14-321"
            ], 
            "type": "CreativeWork"
          }, 
          {
            "id": "https://doi.org/10.1085/jgp.200409211", 
            "sameAs": [
              "https://app.dimensions.ai/details/publication/pub.1052863240"
            ], 
            "type": "CreativeWork"
          }, 
          {
            "id": "https://doi.org/10.1371/journal.pone.0003746", 
            "sameAs": [
              "https://app.dimensions.ai/details/publication/pub.1053179617"
            ], 
            "type": "CreativeWork"
          }, 
          {
            "id": "https://doi.org/10.1086/666098", 
            "sameAs": [
              "https://app.dimensions.ai/details/publication/pub.1058850729"
            ], 
            "type": "CreativeWork"
          }, 
          {
            "id": "https://doi.org/10.1126/science.1205336", 
            "sameAs": [
              "https://app.dimensions.ai/details/publication/pub.1062464684"
            ], 
            "type": "CreativeWork"
          }, 
          {
            "id": "https://app.dimensions.ai/details/publication/pub.1074726121", 
            "type": "CreativeWork"
          }, 
          {
            "id": "https://app.dimensions.ai/details/publication/pub.1074726151", 
            "type": "CreativeWork"
          }, 
          {
            "id": "https://doi.org/10.1093/oxfordjournals.molbev.a040454", 
            "sameAs": [
              "https://app.dimensions.ai/details/publication/pub.1079752303"
            ], 
            "type": "CreativeWork"
          }, 
          {
            "id": "sg:pub.10.1038/s41467-017-01491-7", 
            "sameAs": [
              "https://app.dimensions.ai/details/publication/pub.1093096732", 
              "https://doi.org/10.1038/s41467-017-01491-7"
            ], 
            "type": "CreativeWork"
          }, 
          {
            "id": "https://doi.org/10.1002/ajb2.1017", 
            "sameAs": [
              "https://app.dimensions.ai/details/publication/pub.1101124626"
            ], 
            "type": "CreativeWork"
          }, 
          {
            "id": "https://doi.org/10.1002/ajb2.1017", 
            "sameAs": [
              "https://app.dimensions.ai/details/publication/pub.1101124626"
            ], 
            "type": "CreativeWork"
          }
        ], 
        "datePublished": "2018-12", 
        "datePublishedReg": "2018-12-01", 
        "description": "BACKGROUND: Crassulacean acid metabolism (CAM) enhances plant water-use efficiency through an inverse day/night pattern of stomatal closure/opening that facilitates nocturnal CO2 uptake. CAM has evolved independently in over 35 plant lineages, accounting for ~\u20096% of all higher plants. Agave species are highly heat- and drought-tolerant, and have been domesticated as model CAM crops for beverage, fiber, and biofuel production in semi-arid and arid regions. However, the genomic basis of evolutionary innovation of CAM in genus Agave is largely unknown.\nRESULTS: Using an approach that integrated genomics, gene co-expression networks, comparative genomics and protein structure analyses, we investigated the molecular evolution of CAM as exemplified in Agave. Comparative genomics analyses among C3, C4 and CAM species revealed that core metabolic components required for CAM have ancient genomic origins traceable to non-vascular plants while regulatory proteins required for diel re-programming of metabolism have a more recent origin shared among C3, C4 and CAM species. We showed that accelerated evolution of key functional domains in proteins responsible for primary metabolism and signaling, together with a diel re-programming of the transcription of genes involved in carbon fixation, carbohydrate processing, redox homeostasis, and circadian control is required for the evolution of CAM in Agave. Furthermore, we highlighted the potential candidates contributing to the adaptation of CAM functional modules.\nCONCLUSIONS: This work provides evidence of adaptive evolution of CAM related pathways. We showed that the core metabolic components required for CAM are shared by non-vascular plants, but regulatory proteins involved in re-reprogramming of carbon fixation and metabolite transportation appeared more recently. We propose that the accelerated evolution of key proteins together with a diel re-programming of gene expression were required for CAM evolution from C3 ancestors in Agave.", 
        "genre": "research_article", 
        "id": "sg:pub.10.1186/s12864-018-4964-7", 
        "inLanguage": [
          "en"
        ], 
        "isAccessibleForFree": true, 
        "isFundedItemOf": [
          {
            "id": "sg:grant.4320937", 
            "type": "MonetaryGrant"
          }
        ], 
        "isPartOf": [
          {
            "id": "sg:journal.1023790", 
            "issn": [
              "1471-2164"
            ], 
            "name": "BMC Genomics", 
            "type": "Periodical"
          }, 
          {
            "issueNumber": "1", 
            "type": "PublicationIssue"
          }, 
          {
            "type": "PublicationVolume", 
            "volumeNumber": "19"
          }
        ], 
        "name": "Diel rewiring and positive selection of ancient plant proteins enabled evolution of CAM photosynthesis in Agave", 
        "pagination": "588", 
        "productId": [
          {
            "name": "doi", 
            "type": "PropertyValue", 
            "value": [
              "10.1186/s12864-018-4964-7"
            ]
          }, 
          {
            "name": "readcube_id", 
            "type": "PropertyValue", 
            "value": [
              "172fb5da4aaff38d102d5e2d73be713bda521b7a112798c45efc31940e0c99ea"
            ]
          }, 
          {
            "name": "dimensions_id", 
            "type": "PropertyValue", 
            "value": [
              "pub.1106015038"
            ]
          }, 
          {
            "name": "nlm_unique_id", 
            "type": "PropertyValue", 
            "value": [
              "100965258"
            ]
          }, 
          {
            "name": "pubmed_id", 
            "type": "PropertyValue", 
            "value": [
              "30081833"
            ]
          }
        ], 
        "sameAs": [
          "https://doi.org/10.1186/s12864-018-4964-7", 
          "https://app.dimensions.ai/details/publication/pub.1106015038"
        ], 
        "sdDataset": "articles", 
        "sdDatePublished": "2019-04-15T09:14", 
        "sdLicense": "https://scigraph.springernature.com/explorer/license/", 
        "sdPublisher": {
          "name": "Springer Nature - SN SciGraph project", 
          "type": "Organization"
        }, 
        "sdSource": "s3://com-uberresearch-data-dimensions-target-20181106-alternative/cleanup/v134/2549eaecd7973599484d7c17b260dba0a4ecb94b/merge/v9/a6c9fde33151104705d4d7ff012ea9563521a3ce/jats-lookup/v90/0000000376_0000000376/records_56164_00000005.jsonl", 
        "type": "ScholarlyArticle", 
        "url": "https://link.springer.com/10.1186%2Fs12864-018-4964-7"
      }
    ]
     

    Download the RDF metadata as:  json-ld nt turtle xml License info

    HOW TO GET THIS DATA PROGRAMMATICALLY:

    JSON-LD is a popular format for linked data which is fully compatible with JSON.

    curl -H 'Accept: application/ld+json' 'https://scigraph.springernature.com/pub.10.1186/s12864-018-4964-7'

    N-Triples is a line-based linked data format ideal for batch operations.

    curl -H 'Accept: application/n-triples' 'https://scigraph.springernature.com/pub.10.1186/s12864-018-4964-7'

    Turtle is a human-readable linked data format.

    curl -H 'Accept: text/turtle' 'https://scigraph.springernature.com/pub.10.1186/s12864-018-4964-7'

    RDF/XML is a standard XML format for linked data.

    curl -H 'Accept: application/rdf+xml' 'https://scigraph.springernature.com/pub.10.1186/s12864-018-4964-7'


     

    This table displays all metadata directly associated to this object as RDF triples.

    480 TRIPLES      21 PREDICATES      111 URIs      33 LITERALS      21 BLANK NODES

    Subject Predicate Object
    1 sg:pub.10.1186/s12864-018-4964-7 schema:about N030499301b1c4e2dac37ff728670cbbf
    2 N04c144fea9334a94a24963d50f9a8777
    3 N0d7d8688a850422cbeb161411371bd68
    4 N3c53b061454a440da8e8b5976445a081
    5 N49c8d6f619c64a8e853ea7ad515a48e7
    6 N4e78d31e04284635939a8d2f877f2d94
    7 N581ba622ee9842e1b9e3a12886173aab
    8 N5c1dc094cd714a219bdbd650250efc5a
    9 N5e765646f7fe46d1bb1e212a7440d96d
    10 N6dfea28e450c4120abd5cea52406aa60
    11 Nd8229915c139400ca5c372d27386cd2d
    12 Ne15e29718d17412a82b34ffc1f852e54
    13 anzsrc-for:06
    14 anzsrc-for:0604
    15 schema:author N945a4009f6d243cfb88de6a50ec372b7
    16 schema:citation sg:pub.10.1007/s00239-009-9316-4
    17 sg:pub.10.1007/s11120-013-9874-6
    18 sg:pub.10.1007/s12155-011-9159-x
    19 sg:pub.10.1007/s12374-010-9097-8
    20 sg:pub.10.1038/nature09654
    21 sg:pub.10.1038/ng.3149
    22 sg:pub.10.1038/ng.3435
    23 sg:pub.10.1038/nplants.2016.178
    24 sg:pub.10.1038/nprot.2010.5
    25 sg:pub.10.1038/s41467-017-01491-7
    26 sg:pub.10.1186/1471-2105-10-421
    27 sg:pub.10.1186/1471-2105-14-321
    28 sg:pub.10.1186/1471-2105-9-559
    29 sg:pub.10.1186/1471-2148-7-73
    30 sg:pub.10.1186/1471-2164-14-563
    31 sg:pub.10.1186/gb-2013-14-6-208
    32 https://app.dimensions.ai/details/publication/pub.1074726121
    33 https://app.dimensions.ai/details/publication/pub.1074726151
    34 https://doi.org/10.1002/1097-0134(20001115)41:3<415::aid-prot130>3.0.co;2-7
    35 https://doi.org/10.1002/1097-0134(20010101)42:1<38::aid-prot50>3.0.co;2-3
    36 https://doi.org/10.1002/ajb2.1017
    37 https://doi.org/10.1016/j.bbapap.2010.01.017
    38 https://doi.org/10.1016/j.febslet.2011.03.051
    39 https://doi.org/10.1016/j.pbi.2016.03.019
    40 https://doi.org/10.1016/j.tplants.2014.01.006
    41 https://doi.org/10.1016/s1093-3263(00)00138-8
    42 https://doi.org/10.1016/s1360-1385(99)01543-5
    43 https://doi.org/10.1042/bst0310728
    44 https://doi.org/10.1042/bst0330945
    45 https://doi.org/10.1046/j.1365-313x.1999.00609.x
    46 https://doi.org/10.1071/fp10084
    47 https://doi.org/10.1073/pnas.0813035106
    48 https://doi.org/10.1073/pnas.1832002100
    49 https://doi.org/10.1085/jgp.200409211
    50 https://doi.org/10.1086/666098
    51 https://doi.org/10.1093/aob/mch087
    52 https://doi.org/10.1093/bioinformatics/bti079
    53 https://doi.org/10.1093/bioinformatics/bti551
    54 https://doi.org/10.1093/bioinformatics/btl158
    55 https://doi.org/10.1093/bioinformatics/btp101
    56 https://doi.org/10.1093/bioinformatics/btq429
    57 https://doi.org/10.1093/bioinformatics/bts565
    58 https://doi.org/10.1093/jxb/erp118
    59 https://doi.org/10.1093/jxb/eru087
    60 https://doi.org/10.1093/molbev/msq335
    61 https://doi.org/10.1093/molbev/mst010
    62 https://doi.org/10.1093/molbev/msw054
    63 https://doi.org/10.1093/nar/25.17.3389
    64 https://doi.org/10.1093/nar/30.7.1575
    65 https://doi.org/10.1093/nar/gkl315
    66 https://doi.org/10.1093/nar/gkm321
    67 https://doi.org/10.1093/nar/gkq291
    68 https://doi.org/10.1093/nar/gks372
    69 https://doi.org/10.1093/nar/gku986
    70 https://doi.org/10.1093/oxfordjournals.molbev.a004037
    71 https://doi.org/10.1093/oxfordjournals.molbev.a040454
    72 https://doi.org/10.1101/gr.1224503
    73 https://doi.org/10.1101/gr.229202
    74 https://doi.org/10.1101/sqb.2007.72.006
    75 https://doi.org/10.1104/pp.104.054577
    76 https://doi.org/10.1104/pp.111.179275
    77 https://doi.org/10.1104/pp.114.237107
    78 https://doi.org/10.1111/j.1365-313x.2004.02011.x
    79 https://doi.org/10.1111/j.1757-1707.2010.01077.x
    80 https://doi.org/10.1111/nph.12461
    81 https://doi.org/10.1111/nph.13393
    82 https://doi.org/10.1126/science.1205336
    83 https://doi.org/10.1146/annurev-arplant-042809-112122
    84 https://doi.org/10.1146/annurev.es.24.110193.002211
    85 https://doi.org/10.1371/journal.pone.0003746
    86 schema:datePublished 2018-12
    87 schema:datePublishedReg 2018-12-01
    88 schema:description BACKGROUND: Crassulacean acid metabolism (CAM) enhances plant water-use efficiency through an inverse day/night pattern of stomatal closure/opening that facilitates nocturnal CO2 uptake. CAM has evolved independently in over 35 plant lineages, accounting for ~ 6% of all higher plants. Agave species are highly heat- and drought-tolerant, and have been domesticated as model CAM crops for beverage, fiber, and biofuel production in semi-arid and arid regions. However, the genomic basis of evolutionary innovation of CAM in genus Agave is largely unknown. RESULTS: Using an approach that integrated genomics, gene co-expression networks, comparative genomics and protein structure analyses, we investigated the molecular evolution of CAM as exemplified in Agave. Comparative genomics analyses among C3, C4 and CAM species revealed that core metabolic components required for CAM have ancient genomic origins traceable to non-vascular plants while regulatory proteins required for diel re-programming of metabolism have a more recent origin shared among C3, C4 and CAM species. We showed that accelerated evolution of key functional domains in proteins responsible for primary metabolism and signaling, together with a diel re-programming of the transcription of genes involved in carbon fixation, carbohydrate processing, redox homeostasis, and circadian control is required for the evolution of CAM in Agave. Furthermore, we highlighted the potential candidates contributing to the adaptation of CAM functional modules. CONCLUSIONS: This work provides evidence of adaptive evolution of CAM related pathways. We showed that the core metabolic components required for CAM are shared by non-vascular plants, but regulatory proteins involved in re-reprogramming of carbon fixation and metabolite transportation appeared more recently. We propose that the accelerated evolution of key proteins together with a diel re-programming of gene expression were required for CAM evolution from C3 ancestors in Agave.
    89 schema:genre research_article
    90 schema:inLanguage en
    91 schema:isAccessibleForFree true
    92 schema:isPartOf N17dc08b5d67f4017a5c26dd23dc461ea
    93 N7886b53839f841a98e21a8df6ab34054
    94 sg:journal.1023790
    95 schema:name Diel rewiring and positive selection of ancient plant proteins enabled evolution of CAM photosynthesis in Agave
    96 schema:pagination 588
    97 schema:productId N7ada34da649e444993322b9471d0f5f6
    98 N7fe9f39f489c469585c5b5c463bebd69
    99 Na5723283e8d2471d8a45b0d85f891f32
    100 Nc0b1f8144b034674807f04c653541bfe
    101 Ne20b6b2fa78c4cf4a4351f1db8b53dd3
    102 schema:sameAs https://app.dimensions.ai/details/publication/pub.1106015038
    103 https://doi.org/10.1186/s12864-018-4964-7
    104 schema:sdDatePublished 2019-04-15T09:14
    105 schema:sdLicense https://scigraph.springernature.com/explorer/license/
    106 schema:sdPublisher Nb9cc1e38e7934a0db5fc09564126b964
    107 schema:url https://link.springer.com/10.1186%2Fs12864-018-4964-7
    108 sgo:license sg:explorer/license/
    109 sgo:sdDataset articles
    110 rdf:type schema:ScholarlyArticle
    111 N030499301b1c4e2dac37ff728670cbbf schema:inDefinedTermSet https://www.nlm.nih.gov/mesh/
    112 schema:name Protein Structure, Secondary
    113 rdf:type schema:DefinedTerm
    114 N04c144fea9334a94a24963d50f9a8777 schema:inDefinedTermSet https://www.nlm.nih.gov/mesh/
    115 schema:name Carbon
    116 rdf:type schema:DefinedTerm
    117 N0d7d8688a850422cbeb161411371bd68 schema:inDefinedTermSet https://www.nlm.nih.gov/mesh/
    118 schema:name Carbon Cycle
    119 rdf:type schema:DefinedTerm
    120 N17dc08b5d67f4017a5c26dd23dc461ea schema:issueNumber 1
    121 rdf:type schema:PublicationIssue
    122 N1895f9af629b4e2bad33ba6d58641750 rdf:first sg:person.01203457443.14
    123 rdf:rest Ne14d868845c6495eab9fa81ed2a25f59
    124 N2085020790154a7580dc782a90294227 rdf:first sg:person.01145145713.79
    125 rdf:rest Nb2c3e0f8d7e640c6b808cb9f82f34321
    126 N217ccd6b71524e25b9a9309450d511a8 rdf:first sg:person.0617015075.10
    127 rdf:rest N3de8dcc883d14323b642ed6a525d7d2d
    128 N2446fb15e10c4125ac9a1be4eafc01be rdf:first sg:person.0714547316.57
    129 rdf:rest N3cce0b62297b4dceaad22254ee4021cd
    130 N3c53b061454a440da8e8b5976445a081 schema:inDefinedTermSet https://www.nlm.nih.gov/mesh/
    131 schema:name Genomics
    132 rdf:type schema:DefinedTerm
    133 N3cce0b62297b4dceaad22254ee4021cd rdf:first sg:person.0736126360.28
    134 rdf:rest rdf:nil
    135 N3de8dcc883d14323b642ed6a525d7d2d rdf:first sg:person.01067310355.38
    136 rdf:rest Na298d5bf2a3049e593f8dbf0b1b5a9be
    137 N49c8d6f619c64a8e853ea7ad515a48e7 schema:inDefinedTermSet https://www.nlm.nih.gov/mesh/
    138 schema:name Agave
    139 rdf:type schema:DefinedTerm
    140 N4e78d31e04284635939a8d2f877f2d94 schema:inDefinedTermSet https://www.nlm.nih.gov/mesh/
    141 schema:name Photosynthesis
    142 rdf:type schema:DefinedTerm
    143 N515d74fed4b143b8aaba8e5f17510e9c rdf:first sg:person.0733243475.32
    144 rdf:rest Nda3271920ecd4878ae5de693e08459d0
    145 N57ad5c48a3ba4b38bfb0c585230a1645 rdf:first sg:person.01052354760.27
    146 rdf:rest N1895f9af629b4e2bad33ba6d58641750
    147 N581ba622ee9842e1b9e3a12886173aab schema:inDefinedTermSet https://www.nlm.nih.gov/mesh/
    148 schema:name Models, Molecular
    149 rdf:type schema:DefinedTerm
    150 N5c1dc094cd714a219bdbd650250efc5a schema:inDefinedTermSet https://www.nlm.nih.gov/mesh/
    151 schema:name Evolution, Molecular
    152 rdf:type schema:DefinedTerm
    153 N5e765646f7fe46d1bb1e212a7440d96d schema:inDefinedTermSet https://www.nlm.nih.gov/mesh/
    154 schema:name Phylogeny
    155 rdf:type schema:DefinedTerm
    156 N633337691441493588e7330d8f0b1690 rdf:first sg:person.01273706575.10
    157 rdf:rest N2446fb15e10c4125ac9a1be4eafc01be
    158 N6dfea28e450c4120abd5cea52406aa60 schema:inDefinedTermSet https://www.nlm.nih.gov/mesh/
    159 schema:name Gene Regulatory Networks
    160 rdf:type schema:DefinedTerm
    161 N7886b53839f841a98e21a8df6ab34054 schema:volumeNumber 19
    162 rdf:type schema:PublicationVolume
    163 N79ea92b53e6449cc80a9c121a04317b8 rdf:first sg:person.0624601107.74
    164 rdf:rest N633337691441493588e7330d8f0b1690
    165 N7ada34da649e444993322b9471d0f5f6 schema:name readcube_id
    166 schema:value 172fb5da4aaff38d102d5e2d73be713bda521b7a112798c45efc31940e0c99ea
    167 rdf:type schema:PropertyValue
    168 N7e805229ed3a40bbaca56e0e45547d78 rdf:first sg:person.0763247566.81
    169 rdf:rest N2085020790154a7580dc782a90294227
    170 N7fe9f39f489c469585c5b5c463bebd69 schema:name nlm_unique_id
    171 schema:value 100965258
    172 rdf:type schema:PropertyValue
    173 N945a4009f6d243cfb88de6a50ec372b7 rdf:first sg:person.0716577125.79
    174 rdf:rest N985cb745c5c548989eb2c855a0f468f4
    175 N985cb745c5c548989eb2c855a0f468f4 rdf:first sg:person.01165414747.65
    176 rdf:rest N217ccd6b71524e25b9a9309450d511a8
    177 Na298d5bf2a3049e593f8dbf0b1b5a9be rdf:first sg:person.0665130275.40
    178 rdf:rest N7e805229ed3a40bbaca56e0e45547d78
    179 Na5723283e8d2471d8a45b0d85f891f32 schema:name doi
    180 schema:value 10.1186/s12864-018-4964-7
    181 rdf:type schema:PropertyValue
    182 Nb2c3e0f8d7e640c6b808cb9f82f34321 rdf:first sg:person.01312077772.39
    183 rdf:rest N515d74fed4b143b8aaba8e5f17510e9c
    184 Nb9cc1e38e7934a0db5fc09564126b964 schema:name Springer Nature - SN SciGraph project
    185 rdf:type schema:Organization
    186 Nc0b1f8144b034674807f04c653541bfe schema:name pubmed_id
    187 schema:value 30081833
    188 rdf:type schema:PropertyValue
    189 Nd8229915c139400ca5c372d27386cd2d schema:inDefinedTermSet https://www.nlm.nih.gov/mesh/
    190 schema:name Plant Proteins
    191 rdf:type schema:DefinedTerm
    192 Nda3271920ecd4878ae5de693e08459d0 rdf:first sg:person.01015172225.11
    193 rdf:rest N57ad5c48a3ba4b38bfb0c585230a1645
    194 Ne14d868845c6495eab9fa81ed2a25f59 rdf:first sg:person.01233336244.31
    195 rdf:rest N79ea92b53e6449cc80a9c121a04317b8
    196 Ne15e29718d17412a82b34ffc1f852e54 schema:inDefinedTermSet https://www.nlm.nih.gov/mesh/
    197 schema:name Gene Expression Profiling
    198 rdf:type schema:DefinedTerm
    199 Ne20b6b2fa78c4cf4a4351f1db8b53dd3 schema:name dimensions_id
    200 schema:value pub.1106015038
    201 rdf:type schema:PropertyValue
    202 anzsrc-for:06 schema:inDefinedTermSet anzsrc-for:
    203 schema:name Biological Sciences
    204 rdf:type schema:DefinedTerm
    205 anzsrc-for:0604 schema:inDefinedTermSet anzsrc-for:
    206 schema:name Genetics
    207 rdf:type schema:DefinedTerm
    208 sg:grant.4320937 http://pending.schema.org/fundedItem sg:pub.10.1186/s12864-018-4964-7
    209 rdf:type schema:MonetaryGrant
    210 sg:journal.1023790 schema:issn 1471-2164
    211 schema:name BMC Genomics
    212 rdf:type schema:Periodical
    213 sg:person.01015172225.11 schema:affiliation https://www.grid.ac/institutes/grid.135519.a
    214 schema:familyName Tschaplinski
    215 schema:givenName Timothy J.
    216 schema:sameAs https://app.dimensions.ai/discover/publication?and_facet_researcher=ur.01015172225.11
    217 rdf:type schema:Person
    218 sg:person.01052354760.27 schema:affiliation https://www.grid.ac/institutes/grid.135519.a
    219 schema:familyName Wullschleger
    220 schema:givenName Stan D.
    221 schema:sameAs https://app.dimensions.ai/discover/publication?and_facet_researcher=ur.01052354760.27
    222 rdf:type schema:Person
    223 sg:person.01067310355.38 schema:affiliation https://www.grid.ac/institutes/grid.1006.7
    224 schema:familyName Borland
    225 schema:givenName Anne M.
    226 schema:sameAs https://app.dimensions.ai/discover/publication?and_facet_researcher=ur.01067310355.38
    227 rdf:type schema:Person
    228 sg:person.01145145713.79 schema:affiliation https://www.grid.ac/institutes/grid.135519.a
    229 schema:familyName Jawdy
    230 schema:givenName Sara S.
    231 schema:sameAs https://app.dimensions.ai/discover/publication?and_facet_researcher=ur.01145145713.79
    232 rdf:type schema:Person
    233 sg:person.01165414747.65 schema:affiliation https://www.grid.ac/institutes/grid.411461.7
    234 schema:familyName Guo
    235 schema:givenName Hao-Bo
    236 schema:sameAs https://app.dimensions.ai/discover/publication?and_facet_researcher=ur.01165414747.65
    237 rdf:type schema:Person
    238 sg:person.01203457443.14 schema:affiliation https://www.grid.ac/institutes/grid.411461.7
    239 schema:familyName Guo
    240 schema:givenName Hong
    241 schema:sameAs https://app.dimensions.ai/discover/publication?and_facet_researcher=ur.01203457443.14
    242 rdf:type schema:Person
    243 sg:person.01233336244.31 schema:affiliation https://www.grid.ac/institutes/grid.135519.a
    244 schema:familyName Hettich
    245 schema:givenName Robert L.
    246 schema:sameAs https://app.dimensions.ai/discover/publication?and_facet_researcher=ur.01233336244.31
    247 rdf:type schema:Person
    248 sg:person.01273706575.10 schema:affiliation https://www.grid.ac/institutes/grid.184769.5
    249 schema:familyName Wang
    250 schema:givenName Zhong
    251 schema:sameAs https://app.dimensions.ai/discover/publication?and_facet_researcher=ur.01273706575.10
    252 rdf:type schema:Person
    253 sg:person.01312077772.39 schema:affiliation https://www.grid.ac/institutes/grid.260238.d
    254 schema:familyName Wachira
    255 schema:givenName James
    256 schema:sameAs https://app.dimensions.ai/discover/publication?and_facet_researcher=ur.01312077772.39
    257 rdf:type schema:Person
    258 sg:person.0617015075.10 schema:affiliation https://www.grid.ac/institutes/grid.135519.a
    259 schema:familyName Weston
    260 schema:givenName David J.
    261 schema:sameAs https://app.dimensions.ai/discover/publication?and_facet_researcher=ur.0617015075.10
    262 rdf:type schema:Person
    263 sg:person.0624601107.74 schema:affiliation https://www.grid.ac/institutes/grid.185669.5
    264 schema:familyName Gross
    265 schema:givenName Stephen M.
    266 schema:sameAs https://app.dimensions.ai/discover/publication?and_facet_researcher=ur.0624601107.74
    267 rdf:type schema:Person
    268 sg:person.0665130275.40 schema:affiliation https://www.grid.ac/institutes/grid.135519.a
    269 schema:familyName Ranjan
    270 schema:givenName Priya
    271 schema:sameAs https://app.dimensions.ai/discover/publication?and_facet_researcher=ur.0665130275.40
    272 rdf:type schema:Person
    273 sg:person.0714547316.57 schema:affiliation https://www.grid.ac/institutes/grid.184769.5
    274 schema:familyName Visel
    275 schema:givenName Axel
    276 schema:sameAs https://app.dimensions.ai/discover/publication?and_facet_researcher=ur.0714547316.57
    277 rdf:type schema:Person
    278 sg:person.0716577125.79 schema:affiliation https://www.grid.ac/institutes/grid.216566.0
    279 schema:familyName Yin
    280 schema:givenName Hengfu
    281 schema:sameAs https://app.dimensions.ai/discover/publication?and_facet_researcher=ur.0716577125.79
    282 rdf:type schema:Person
    283 sg:person.0733243475.32 schema:affiliation https://www.grid.ac/institutes/grid.135519.a
    284 schema:familyName Tuskan
    285 schema:givenName Gerald A.
    286 schema:sameAs https://app.dimensions.ai/discover/publication?and_facet_researcher=ur.0733243475.32
    287 rdf:type schema:Person
    288 sg:person.0736126360.28 schema:affiliation https://www.grid.ac/institutes/grid.135519.a
    289 schema:familyName Yang
    290 schema:givenName Xiaohan
    291 schema:sameAs https://app.dimensions.ai/discover/publication?and_facet_researcher=ur.0736126360.28
    292 rdf:type schema:Person
    293 sg:person.0763247566.81 schema:affiliation https://www.grid.ac/institutes/grid.135519.a
    294 schema:familyName Abraham
    295 schema:givenName Paul E.
    296 schema:sameAs https://app.dimensions.ai/discover/publication?and_facet_researcher=ur.0763247566.81
    297 rdf:type schema:Person
    298 sg:pub.10.1007/s00239-009-9316-4 schema:sameAs https://app.dimensions.ai/details/publication/pub.1023315317
    299 https://doi.org/10.1007/s00239-009-9316-4
    300 rdf:type schema:CreativeWork
    301 sg:pub.10.1007/s11120-013-9874-6 schema:sameAs https://app.dimensions.ai/details/publication/pub.1015227170
    302 https://doi.org/10.1007/s11120-013-9874-6
    303 rdf:type schema:CreativeWork
    304 sg:pub.10.1007/s12155-011-9159-x schema:sameAs https://app.dimensions.ai/details/publication/pub.1022134198
    305 https://doi.org/10.1007/s12155-011-9159-x
    306 rdf:type schema:CreativeWork
    307 sg:pub.10.1007/s12374-010-9097-8 schema:sameAs https://app.dimensions.ai/details/publication/pub.1048509675
    308 https://doi.org/10.1007/s12374-010-9097-8
    309 rdf:type schema:CreativeWork
    310 sg:pub.10.1038/nature09654 schema:sameAs https://app.dimensions.ai/details/publication/pub.1027529978
    311 https://doi.org/10.1038/nature09654
    312 rdf:type schema:CreativeWork
    313 sg:pub.10.1038/ng.3149 schema:sameAs https://app.dimensions.ai/details/publication/pub.1051243070
    314 https://doi.org/10.1038/ng.3149
    315 rdf:type schema:CreativeWork
    316 sg:pub.10.1038/ng.3435 schema:sameAs https://app.dimensions.ai/details/publication/pub.1034190490
    317 https://doi.org/10.1038/ng.3435
    318 rdf:type schema:CreativeWork
    319 sg:pub.10.1038/nplants.2016.178 schema:sameAs https://app.dimensions.ai/details/publication/pub.1017642281
    320 https://doi.org/10.1038/nplants.2016.178
    321 rdf:type schema:CreativeWork
    322 sg:pub.10.1038/nprot.2010.5 schema:sameAs https://app.dimensions.ai/details/publication/pub.1006999469
    323 https://doi.org/10.1038/nprot.2010.5
    324 rdf:type schema:CreativeWork
    325 sg:pub.10.1038/s41467-017-01491-7 schema:sameAs https://app.dimensions.ai/details/publication/pub.1093096732
    326 https://doi.org/10.1038/s41467-017-01491-7
    327 rdf:type schema:CreativeWork
    328 sg:pub.10.1186/1471-2105-10-421 schema:sameAs https://app.dimensions.ai/details/publication/pub.1050579230
    329 https://doi.org/10.1186/1471-2105-10-421
    330 rdf:type schema:CreativeWork
    331 sg:pub.10.1186/1471-2105-14-321 schema:sameAs https://app.dimensions.ai/details/publication/pub.1052802884
    332 https://doi.org/10.1186/1471-2105-14-321
    333 rdf:type schema:CreativeWork
    334 sg:pub.10.1186/1471-2105-9-559 schema:sameAs https://app.dimensions.ai/details/publication/pub.1020312314
    335 https://doi.org/10.1186/1471-2105-9-559
    336 rdf:type schema:CreativeWork
    337 sg:pub.10.1186/1471-2148-7-73 schema:sameAs https://app.dimensions.ai/details/publication/pub.1024162838
    338 https://doi.org/10.1186/1471-2148-7-73
    339 rdf:type schema:CreativeWork
    340 sg:pub.10.1186/1471-2164-14-563 schema:sameAs https://app.dimensions.ai/details/publication/pub.1044344394
    341 https://doi.org/10.1186/1471-2164-14-563
    342 rdf:type schema:CreativeWork
    343 sg:pub.10.1186/gb-2013-14-6-208 schema:sameAs https://app.dimensions.ai/details/publication/pub.1002634236
    344 https://doi.org/10.1186/gb-2013-14-6-208
    345 rdf:type schema:CreativeWork
    346 https://app.dimensions.ai/details/publication/pub.1074726121 schema:CreativeWork
    347 https://app.dimensions.ai/details/publication/pub.1074726151 schema:CreativeWork
    348 https://doi.org/10.1002/1097-0134(20001115)41:3<415::aid-prot130>3.0.co;2-7 schema:sameAs https://app.dimensions.ai/details/publication/pub.1000807177
    349 rdf:type schema:CreativeWork
    350 https://doi.org/10.1002/1097-0134(20010101)42:1<38::aid-prot50>3.0.co;2-3 schema:sameAs https://app.dimensions.ai/details/publication/pub.1003424819
    351 rdf:type schema:CreativeWork
    352 https://doi.org/10.1002/ajb2.1017 schema:sameAs https://app.dimensions.ai/details/publication/pub.1101124626
    353 rdf:type schema:CreativeWork
    354 https://doi.org/10.1016/j.bbapap.2010.01.017 schema:sameAs https://app.dimensions.ai/details/publication/pub.1013191406
    355 rdf:type schema:CreativeWork
    356 https://doi.org/10.1016/j.febslet.2011.03.051 schema:sameAs https://app.dimensions.ai/details/publication/pub.1000405799
    357 rdf:type schema:CreativeWork
    358 https://doi.org/10.1016/j.pbi.2016.03.019 schema:sameAs https://app.dimensions.ai/details/publication/pub.1011337203
    359 rdf:type schema:CreativeWork
    360 https://doi.org/10.1016/j.tplants.2014.01.006 schema:sameAs https://app.dimensions.ai/details/publication/pub.1015147408
    361 rdf:type schema:CreativeWork
    362 https://doi.org/10.1016/s1093-3263(00)00138-8 schema:sameAs https://app.dimensions.ai/details/publication/pub.1051973135
    363 rdf:type schema:CreativeWork
    364 https://doi.org/10.1016/s1360-1385(99)01543-5 schema:sameAs https://app.dimensions.ai/details/publication/pub.1030751438
    365 rdf:type schema:CreativeWork
    366 https://doi.org/10.1042/bst0310728 schema:sameAs https://app.dimensions.ai/details/publication/pub.1016409663
    367 rdf:type schema:CreativeWork
    368 https://doi.org/10.1042/bst0330945 schema:sameAs https://app.dimensions.ai/details/publication/pub.1023144751
    369 rdf:type schema:CreativeWork
    370 https://doi.org/10.1046/j.1365-313x.1999.00609.x schema:sameAs https://app.dimensions.ai/details/publication/pub.1029245793
    371 rdf:type schema:CreativeWork
    372 https://doi.org/10.1071/fp10084 schema:sameAs https://app.dimensions.ai/details/publication/pub.1021568520
    373 rdf:type schema:CreativeWork
    374 https://doi.org/10.1073/pnas.0813035106 schema:sameAs https://app.dimensions.ai/details/publication/pub.1050382506
    375 rdf:type schema:CreativeWork
    376 https://doi.org/10.1073/pnas.1832002100 schema:sameAs https://app.dimensions.ai/details/publication/pub.1047752831
    377 rdf:type schema:CreativeWork
    378 https://doi.org/10.1085/jgp.200409211 schema:sameAs https://app.dimensions.ai/details/publication/pub.1052863240
    379 rdf:type schema:CreativeWork
    380 https://doi.org/10.1086/666098 schema:sameAs https://app.dimensions.ai/details/publication/pub.1058850729
    381 rdf:type schema:CreativeWork
    382 https://doi.org/10.1093/aob/mch087 schema:sameAs https://app.dimensions.ai/details/publication/pub.1049778033
    383 rdf:type schema:CreativeWork
    384 https://doi.org/10.1093/bioinformatics/bti079 schema:sameAs https://app.dimensions.ai/details/publication/pub.1046797744
    385 rdf:type schema:CreativeWork
    386 https://doi.org/10.1093/bioinformatics/bti551 schema:sameAs https://app.dimensions.ai/details/publication/pub.1032806326
    387 rdf:type schema:CreativeWork
    388 https://doi.org/10.1093/bioinformatics/btl158 schema:sameAs https://app.dimensions.ai/details/publication/pub.1014668137
    389 rdf:type schema:CreativeWork
    390 https://doi.org/10.1093/bioinformatics/btp101 schema:sameAs https://app.dimensions.ai/details/publication/pub.1001910376
    391 rdf:type schema:CreativeWork
    392 https://doi.org/10.1093/bioinformatics/btq429 schema:sameAs https://app.dimensions.ai/details/publication/pub.1050802009
    393 rdf:type schema:CreativeWork
    394 https://doi.org/10.1093/bioinformatics/bts565 schema:sameAs https://app.dimensions.ai/details/publication/pub.1027022529
    395 rdf:type schema:CreativeWork
    396 https://doi.org/10.1093/jxb/erp118 schema:sameAs https://app.dimensions.ai/details/publication/pub.1003259415
    397 rdf:type schema:CreativeWork
    398 https://doi.org/10.1093/jxb/eru087 schema:sameAs https://app.dimensions.ai/details/publication/pub.1015551070
    399 rdf:type schema:CreativeWork
    400 https://doi.org/10.1093/molbev/msq335 schema:sameAs https://app.dimensions.ai/details/publication/pub.1032920989
    401 rdf:type schema:CreativeWork
    402 https://doi.org/10.1093/molbev/mst010 schema:sameAs https://app.dimensions.ai/details/publication/pub.1045545793
    403 rdf:type schema:CreativeWork
    404 https://doi.org/10.1093/molbev/msw054 schema:sameAs https://app.dimensions.ai/details/publication/pub.1012564990
    405 rdf:type schema:CreativeWork
    406 https://doi.org/10.1093/nar/25.17.3389 schema:sameAs https://app.dimensions.ai/details/publication/pub.1047265454
    407 rdf:type schema:CreativeWork
    408 https://doi.org/10.1093/nar/30.7.1575 schema:sameAs https://app.dimensions.ai/details/publication/pub.1001067672
    409 rdf:type schema:CreativeWork
    410 https://doi.org/10.1093/nar/gkl315 schema:sameAs https://app.dimensions.ai/details/publication/pub.1022769827
    411 rdf:type schema:CreativeWork
    412 https://doi.org/10.1093/nar/gkm321 schema:sameAs https://app.dimensions.ai/details/publication/pub.1052015517
    413 rdf:type schema:CreativeWork
    414 https://doi.org/10.1093/nar/gkq291 schema:sameAs https://app.dimensions.ai/details/publication/pub.1032121658
    415 rdf:type schema:CreativeWork
    416 https://doi.org/10.1093/nar/gks372 schema:sameAs https://app.dimensions.ai/details/publication/pub.1008927815
    417 rdf:type schema:CreativeWork
    418 https://doi.org/10.1093/nar/gku986 schema:sameAs https://app.dimensions.ai/details/publication/pub.1035567367
    419 rdf:type schema:CreativeWork
    420 https://doi.org/10.1093/oxfordjournals.molbev.a004037 schema:sameAs https://app.dimensions.ai/details/publication/pub.1000692400
    421 rdf:type schema:CreativeWork
    422 https://doi.org/10.1093/oxfordjournals.molbev.a040454 schema:sameAs https://app.dimensions.ai/details/publication/pub.1079752303
    423 rdf:type schema:CreativeWork
    424 https://doi.org/10.1101/gr.1224503 schema:sameAs https://app.dimensions.ai/details/publication/pub.1000505228
    425 rdf:type schema:CreativeWork
    426 https://doi.org/10.1101/gr.229202 schema:sameAs https://app.dimensions.ai/details/publication/pub.1006260064
    427 rdf:type schema:CreativeWork
    428 https://doi.org/10.1101/sqb.2007.72.006 schema:sameAs https://app.dimensions.ai/details/publication/pub.1014645434
    429 rdf:type schema:CreativeWork
    430 https://doi.org/10.1104/pp.104.054577 schema:sameAs https://app.dimensions.ai/details/publication/pub.1003062787
    431 rdf:type schema:CreativeWork
    432 https://doi.org/10.1104/pp.111.179275 schema:sameAs https://app.dimensions.ai/details/publication/pub.1003106255
    433 rdf:type schema:CreativeWork
    434 https://doi.org/10.1104/pp.114.237107 schema:sameAs https://app.dimensions.ai/details/publication/pub.1052186322
    435 rdf:type schema:CreativeWork
    436 https://doi.org/10.1111/j.1365-313x.2004.02011.x schema:sameAs https://app.dimensions.ai/details/publication/pub.1023333857
    437 rdf:type schema:CreativeWork
    438 https://doi.org/10.1111/j.1757-1707.2010.01077.x schema:sameAs https://app.dimensions.ai/details/publication/pub.1013415089
    439 rdf:type schema:CreativeWork
    440 https://doi.org/10.1111/nph.12461 schema:sameAs https://app.dimensions.ai/details/publication/pub.1042192049
    441 rdf:type schema:CreativeWork
    442 https://doi.org/10.1111/nph.13393 schema:sameAs https://app.dimensions.ai/details/publication/pub.1005393453
    443 rdf:type schema:CreativeWork
    444 https://doi.org/10.1126/science.1205336 schema:sameAs https://app.dimensions.ai/details/publication/pub.1062464684
    445 rdf:type schema:CreativeWork
    446 https://doi.org/10.1146/annurev-arplant-042809-112122 schema:sameAs https://app.dimensions.ai/details/publication/pub.1027840715
    447 rdf:type schema:CreativeWork
    448 https://doi.org/10.1146/annurev.es.24.110193.002211 schema:sameAs https://app.dimensions.ai/details/publication/pub.1037531819
    449 rdf:type schema:CreativeWork
    450 https://doi.org/10.1371/journal.pone.0003746 schema:sameAs https://app.dimensions.ai/details/publication/pub.1053179617
    451 rdf:type schema:CreativeWork
    452 https://www.grid.ac/institutes/grid.1006.7 schema:alternateName Newcastle University
    453 schema:name Biosciences Division, Oak Ridge National Laboratory, 37831, Oak Ridge, TN, USA
    454 School of Natural and Environmental Sciences, Newcastle University, NE1 7RU, Newcastle upon Tyne, UK
    455 rdf:type schema:Organization
    456 https://www.grid.ac/institutes/grid.135519.a schema:alternateName Oak Ridge National Laboratory
    457 schema:name Biosciences Division, Oak Ridge National Laboratory, 37831, Oak Ridge, TN, USA
    458 Chemical Sciences Division, Oak Ridge National Laboratory, 37831, Oak Ridge, TN, USA
    459 DOE-Center for Bioenergy Innovation (CBI), Oak Ridge National Laboratory, 37831, Oak Ridge, TN, USA
    460 Environmental Sciences Division, Oak Ridge National Laboratory, 37831, Oak Ridge, TN, USA
    461 rdf:type schema:Organization
    462 https://www.grid.ac/institutes/grid.184769.5 schema:alternateName Lawrence Berkeley National Laboratory
    463 schema:name DOE Joint Genome Institute, 94598, Walnut Creek, CA, USA
    464 Environmental Genomics and Systems Biology Division, Lawrence Berkeley National Laboratory, 94720, Berkeley, CA, USA
    465 School of Natural Sciences, University of California, 95343, Merced, CA, USA
    466 rdf:type schema:Organization
    467 https://www.grid.ac/institutes/grid.185669.5 schema:alternateName Illumina (United States)
    468 schema:name DOE Joint Genome Institute, 94598, Walnut Creek, CA, USA
    469 Present address: Illumina, Inc., 92122, San Diego, CA, USA
    470 rdf:type schema:Organization
    471 https://www.grid.ac/institutes/grid.216566.0 schema:alternateName Chinese Academy of Forestry
    472 schema:name Biosciences Division, Oak Ridge National Laboratory, 37831, Oak Ridge, TN, USA
    473 Present address: Research Institute of Subtropical Forestry, Chinese Academy of Forestry, 311400, Zhejiang, Hangzhou, China
    474 rdf:type schema:Organization
    475 https://www.grid.ac/institutes/grid.260238.d schema:alternateName Morgan State University
    476 schema:name Department of Biology, Morgan State University, 21251, Baltimore, MD, USA
    477 rdf:type schema:Organization
    478 https://www.grid.ac/institutes/grid.411461.7 schema:alternateName University of Tennessee at Knoxville
    479 schema:name Department of Biology, University of Tennessee, 37996, Knoxville, TN, USA
    480 rdf:type schema:Organization
     




    Preview window. Press ESC to close (or click here)


    ...