Integrative comparative analyses of metabolite and transcript profiles uncovers complex regulatory network in tomato (Solanum lycopersicum L.) fruit undergoing chilling ... View Full Text


Ontology type: schema:ScholarlyArticle      Open Access: True


Article Info

DATE

2019-03-14

AUTHORS

Wen-Fa Zhang, Ze-Hao Gong, Meng-Bo Wu, Helen Chan, Yu-Jin Yuan, Ning Tang, Qiang Zhang, Ming-Jun Miao, Wei Chang, Zhi Li, Zheng-Guo Li, Liang Jin, Wei Deng

ABSTRACT

Tomato fruit are especially susceptible to chilling injury (CI) when continuously exposed to temperatures below 12 °C. In this study, integrative comparative analyses of transcriptomics and metabolomics data were performed to uncover the regulatory network in CI tomato fruit. Metabolite profiling analysis found that 7 amino acids, 27 organic acids, 16 of sugars and 22 other compounds had a significantly different content while transcriptomics data showed 1735 differentially expressed genes (DEGs) were down-regulated and 1369 were up-regulated in cold-stored fruit. We found that the contents of citrate, cis-aconitate and succinate were increased, which were consistent with the expression of ATP-citrate synthase (ACS) and isocitrate dehydrogenase (IDH) genes in cold-treated tomato fruit. Cold stress promotes the expression of ACS and IDH which may increase the synthesis of citrate, cis-aconitate and succinate. Alanine and leucine had increased contents, which may result from alanine aminotransferase (ALT) and branched-chain amino acid aminotransferase (BcAT)’s high expression levels, respectively. Overall the transcriptomics and metabolomics data in our study explain the molecular mechanisms of the chilling injury and expands our understanding of the complex regulatory mechanisms of a metabolic network in response to chilling injury in tomato fruit. More... »

PAGES

4470

Identifiers

URI

http://scigraph.springernature.com/pub.10.1038/s41598-019-41065-9

DOI

http://dx.doi.org/10.1038/s41598-019-41065-9

DIMENSIONS

https://app.dimensions.ai/details/publication/pub.1112769128

PUBMED

https://www.ncbi.nlm.nih.gov/pubmed/30872788


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/2008/06", 
        "inDefinedTermSet": "http://purl.org/au-research/vocabulary/anzsrc-for/2008/", 
        "name": "Biological Sciences", 
        "type": "DefinedTerm"
      }, 
      {
        "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"
      }, 
      {
        "inDefinedTermSet": "https://www.nlm.nih.gov/mesh/", 
        "name": "ATP Citrate (pro-S)-Lyase", 
        "type": "DefinedTerm"
      }, 
      {
        "inDefinedTermSet": "https://www.nlm.nih.gov/mesh/", 
        "name": "Aconitic Acid", 
        "type": "DefinedTerm"
      }, 
      {
        "inDefinedTermSet": "https://www.nlm.nih.gov/mesh/", 
        "name": "Citric Acid", 
        "type": "DefinedTerm"
      }, 
      {
        "inDefinedTermSet": "https://www.nlm.nih.gov/mesh/", 
        "name": "Cold Temperature", 
        "type": "DefinedTerm"
      }, 
      {
        "inDefinedTermSet": "https://www.nlm.nih.gov/mesh/", 
        "name": "Gene Expression Profiling", 
        "type": "DefinedTerm"
      }, 
      {
        "inDefinedTermSet": "https://www.nlm.nih.gov/mesh/", 
        "name": "Gene Expression Regulation, Plant", 
        "type": "DefinedTerm"
      }, 
      {
        "inDefinedTermSet": "https://www.nlm.nih.gov/mesh/", 
        "name": "Gene Regulatory Networks", 
        "type": "DefinedTerm"
      }, 
      {
        "inDefinedTermSet": "https://www.nlm.nih.gov/mesh/", 
        "name": "Isocitrate Dehydrogenase", 
        "type": "DefinedTerm"
      }, 
      {
        "inDefinedTermSet": "https://www.nlm.nih.gov/mesh/", 
        "name": "Lycopersicon esculentum", 
        "type": "DefinedTerm"
      }, 
      {
        "inDefinedTermSet": "https://www.nlm.nih.gov/mesh/", 
        "name": "Metabolic Networks and Pathways", 
        "type": "DefinedTerm"
      }, 
      {
        "inDefinedTermSet": "https://www.nlm.nih.gov/mesh/", 
        "name": "Metabolomics", 
        "type": "DefinedTerm"
      }, 
      {
        "inDefinedTermSet": "https://www.nlm.nih.gov/mesh/", 
        "name": "Plant Proteins", 
        "type": "DefinedTerm"
      }, 
      {
        "inDefinedTermSet": "https://www.nlm.nih.gov/mesh/", 
        "name": "Stress, Physiological", 
        "type": "DefinedTerm"
      }, 
      {
        "inDefinedTermSet": "https://www.nlm.nih.gov/mesh/", 
        "name": "Succinic Acid", 
        "type": "DefinedTerm"
      }
    ], 
    "author": [
      {
        "affiliation": {
          "alternateName": "Key Laboratory of Plant Hormones and Development Regulation of Chongqing, School of Life Sciences, Chongqing University, 401331, Chongqing, China", 
          "id": "http://www.grid.ac/institutes/grid.190737.b", 
          "name": [
            "Key Laboratory of Plant Hormones and Development Regulation of Chongqing, School of Life Sciences, Chongqing University, 401331, Chongqing, China"
          ], 
          "type": "Organization"
        }, 
        "familyName": "Zhang", 
        "givenName": "Wen-Fa", 
        "id": "sg:person.011653225327.29", 
        "sameAs": [
          "https://app.dimensions.ai/discover/publication?and_facet_researcher=ur.011653225327.29"
        ], 
        "type": "Person"
      }, 
      {
        "affiliation": {
          "alternateName": "Key Laboratory of Plant Hormones and Development Regulation of Chongqing, School of Life Sciences, Chongqing University, 401331, Chongqing, China", 
          "id": "http://www.grid.ac/institutes/grid.190737.b", 
          "name": [
            "Key Laboratory of Plant Hormones and Development Regulation of Chongqing, School of Life Sciences, Chongqing University, 401331, Chongqing, China"
          ], 
          "type": "Organization"
        }, 
        "familyName": "Gong", 
        "givenName": "Ze-Hao", 
        "id": "sg:person.07705254574.97", 
        "sameAs": [
          "https://app.dimensions.ai/discover/publication?and_facet_researcher=ur.07705254574.97"
        ], 
        "type": "Person"
      }, 
      {
        "affiliation": {
          "alternateName": "Key Laboratory of Plant Hormones and Development Regulation of Chongqing, School of Life Sciences, Chongqing University, 401331, Chongqing, China", 
          "id": "http://www.grid.ac/institutes/grid.190737.b", 
          "name": [
            "Key Laboratory of Plant Hormones and Development Regulation of Chongqing, School of Life Sciences, Chongqing University, 401331, Chongqing, China"
          ], 
          "type": "Organization"
        }, 
        "familyName": "Wu", 
        "givenName": "Meng-Bo", 
        "type": "Person"
      }, 
      {
        "affiliation": {
          "alternateName": "Department of Plant Sciences, University of California, 95616, Davis, CA, USA", 
          "id": "http://www.grid.ac/institutes/grid.27860.3b", 
          "name": [
            "Department of Plant Sciences, University of California, 95616, Davis, CA, USA"
          ], 
          "type": "Organization"
        }, 
        "familyName": "Chan", 
        "givenName": "Helen", 
        "id": "sg:person.016642374137.61", 
        "sameAs": [
          "https://app.dimensions.ai/discover/publication?and_facet_researcher=ur.016642374137.61"
        ], 
        "type": "Person"
      }, 
      {
        "affiliation": {
          "alternateName": "Key Laboratory of Plant Hormones and Development Regulation of Chongqing, School of Life Sciences, Chongqing University, 401331, Chongqing, China", 
          "id": "http://www.grid.ac/institutes/grid.190737.b", 
          "name": [
            "Key Laboratory of Plant Hormones and Development Regulation of Chongqing, School of Life Sciences, Chongqing University, 401331, Chongqing, China"
          ], 
          "type": "Organization"
        }, 
        "familyName": "Yuan", 
        "givenName": "Yu-Jin", 
        "id": "sg:person.0653772561.68", 
        "sameAs": [
          "https://app.dimensions.ai/discover/publication?and_facet_researcher=ur.0653772561.68"
        ], 
        "type": "Person"
      }, 
      {
        "affiliation": {
          "alternateName": "Key Laboratory of Plant Hormones and Development Regulation of Chongqing, School of Life Sciences, Chongqing University, 401331, Chongqing, China", 
          "id": "http://www.grid.ac/institutes/grid.190737.b", 
          "name": [
            "Key Laboratory of Plant Hormones and Development Regulation of Chongqing, School of Life Sciences, Chongqing University, 401331, Chongqing, China"
          ], 
          "type": "Organization"
        }, 
        "familyName": "Tang", 
        "givenName": "Ning", 
        "id": "sg:person.0613160547.68", 
        "sameAs": [
          "https://app.dimensions.ai/discover/publication?and_facet_researcher=ur.0613160547.68"
        ], 
        "type": "Person"
      }, 
      {
        "affiliation": {
          "alternateName": "Key Laboratory of Plant Hormones and Development Regulation of Chongqing, School of Life Sciences, Chongqing University, 401331, Chongqing, China", 
          "id": "http://www.grid.ac/institutes/grid.190737.b", 
          "name": [
            "Key Laboratory of Plant Hormones and Development Regulation of Chongqing, School of Life Sciences, Chongqing University, 401331, Chongqing, China"
          ], 
          "type": "Organization"
        }, 
        "familyName": "Zhang", 
        "givenName": "Qiang", 
        "id": "sg:person.010502635174.53", 
        "sameAs": [
          "https://app.dimensions.ai/discover/publication?and_facet_researcher=ur.010502635174.53"
        ], 
        "type": "Person"
      }, 
      {
        "affiliation": {
          "alternateName": "Horticulture Research Institute, Sichuan Academy of Agricultural Sciences, 610066, Chengdu, China", 
          "id": "http://www.grid.ac/institutes/grid.465230.6", 
          "name": [
            "Horticulture Research Institute, Sichuan Academy of Agricultural Sciences, 610066, Chengdu, China"
          ], 
          "type": "Organization"
        }, 
        "familyName": "Miao", 
        "givenName": "Ming-Jun", 
        "id": "sg:person.016144211664.30", 
        "sameAs": [
          "https://app.dimensions.ai/discover/publication?and_facet_researcher=ur.016144211664.30"
        ], 
        "type": "Person"
      }, 
      {
        "affiliation": {
          "alternateName": "Horticulture Research Institute, Sichuan Academy of Agricultural Sciences, 610066, Chengdu, China", 
          "id": "http://www.grid.ac/institutes/grid.465230.6", 
          "name": [
            "Horticulture Research Institute, Sichuan Academy of Agricultural Sciences, 610066, Chengdu, China"
          ], 
          "type": "Organization"
        }, 
        "familyName": "Chang", 
        "givenName": "Wei", 
        "type": "Person"
      }, 
      {
        "affiliation": {
          "alternateName": "Horticulture Research Institute, Sichuan Academy of Agricultural Sciences, 610066, Chengdu, China", 
          "id": "http://www.grid.ac/institutes/grid.465230.6", 
          "name": [
            "Horticulture Research Institute, Sichuan Academy of Agricultural Sciences, 610066, Chengdu, China"
          ], 
          "type": "Organization"
        }, 
        "familyName": "Li", 
        "givenName": "Zhi", 
        "id": "sg:person.014551250664.77", 
        "sameAs": [
          "https://app.dimensions.ai/discover/publication?and_facet_researcher=ur.014551250664.77"
        ], 
        "type": "Person"
      }, 
      {
        "affiliation": {
          "alternateName": "Key Laboratory of Plant Hormones and Development Regulation of Chongqing, School of Life Sciences, Chongqing University, 401331, Chongqing, China", 
          "id": "http://www.grid.ac/institutes/grid.190737.b", 
          "name": [
            "Key Laboratory of Plant Hormones and Development Regulation of Chongqing, School of Life Sciences, Chongqing University, 401331, Chongqing, China"
          ], 
          "type": "Organization"
        }, 
        "familyName": "Li", 
        "givenName": "Zheng-Guo", 
        "id": "sg:person.01325163206.28", 
        "sameAs": [
          "https://app.dimensions.ai/discover/publication?and_facet_researcher=ur.01325163206.28"
        ], 
        "type": "Person"
      }, 
      {
        "affiliation": {
          "alternateName": "Key Laboratory of Plant Hormones and Development Regulation of Chongqing, School of Life Sciences, Chongqing University, 401331, Chongqing, China", 
          "id": "http://www.grid.ac/institutes/grid.190737.b", 
          "name": [
            "Key Laboratory of Plant Hormones and Development Regulation of Chongqing, School of Life Sciences, Chongqing University, 401331, Chongqing, China"
          ], 
          "type": "Organization"
        }, 
        "familyName": "Jin", 
        "givenName": "Liang", 
        "id": "sg:person.0743642653.54", 
        "sameAs": [
          "https://app.dimensions.ai/discover/publication?and_facet_researcher=ur.0743642653.54"
        ], 
        "type": "Person"
      }, 
      {
        "affiliation": {
          "alternateName": "Key Laboratory of Plant Hormones and Development Regulation of Chongqing, School of Life Sciences, Chongqing University, 401331, Chongqing, China", 
          "id": "http://www.grid.ac/institutes/grid.190737.b", 
          "name": [
            "Key Laboratory of Plant Hormones and Development Regulation of Chongqing, School of Life Sciences, Chongqing University, 401331, Chongqing, China"
          ], 
          "type": "Organization"
        }, 
        "familyName": "Deng", 
        "givenName": "Wei", 
        "id": "sg:person.01106400053.16", 
        "sameAs": [
          "https://app.dimensions.ai/discover/publication?and_facet_researcher=ur.01106400053.16"
        ], 
        "type": "Person"
      }
    ], 
    "citation": [
      {
        "id": "sg:pub.10.1038/nprot.2008.211", 
        "sameAs": [
          "https://app.dimensions.ai/details/publication/pub.1039987283", 
          "https://doi.org/10.1038/nprot.2008.211"
        ], 
        "type": "CreativeWork"
      }, 
      {
        "id": "sg:pub.10.1007/s11103-005-5772-4", 
        "sameAs": [
          "https://app.dimensions.ai/details/publication/pub.1038364433", 
          "https://doi.org/10.1007/s11103-005-5772-4"
        ], 
        "type": "CreativeWork"
      }, 
      {
        "id": "sg:pub.10.1007/s00425-010-1184-z", 
        "sameAs": [
          "https://app.dimensions.ai/details/publication/pub.1050199897", 
          "https://doi.org/10.1007/s00425-010-1184-z"
        ], 
        "type": "CreativeWork"
      }, 
      {
        "id": "sg:pub.10.1007/s00018-012-1091-5", 
        "sameAs": [
          "https://app.dimensions.ai/details/publication/pub.1041780058", 
          "https://doi.org/10.1007/s00018-012-1091-5"
        ], 
        "type": "CreativeWork"
      }, 
      {
        "id": "sg:pub.10.1007/bf03195689", 
        "sameAs": [
          "https://app.dimensions.ai/details/publication/pub.1019887563", 
          "https://doi.org/10.1007/bf03195689"
        ], 
        "type": "CreativeWork"
      }, 
      {
        "id": "sg:pub.10.1038/nbt.1621", 
        "sameAs": [
          "https://app.dimensions.ai/details/publication/pub.1031035095", 
          "https://doi.org/10.1038/nbt.1621"
        ], 
        "type": "CreativeWork"
      }, 
      {
        "id": "sg:pub.10.1186/1471-2164-11-210", 
        "sameAs": [
          "https://app.dimensions.ai/details/publication/pub.1010054652", 
          "https://doi.org/10.1186/1471-2164-11-210"
        ], 
        "type": "CreativeWork"
      }
    ], 
    "datePublished": "2019-03-14", 
    "datePublishedReg": "2019-03-14", 
    "description": "Tomato fruit are especially susceptible to chilling injury (CI) when continuously exposed to temperatures below 12\u2009\u00b0C. In this study, integrative comparative analyses of transcriptomics and metabolomics data were performed to uncover the regulatory network in CI tomato fruit. Metabolite profiling analysis found that 7 amino acids, 27 organic acids, 16 of sugars and 22 other compounds had a significantly different content while transcriptomics data showed 1735 differentially expressed genes (DEGs) were down-regulated and 1369 were up-regulated in cold-stored fruit. We found that the contents of citrate, cis-aconitate and succinate were increased, which were consistent with the expression of ATP-citrate synthase (ACS) and isocitrate dehydrogenase (IDH) genes in cold-treated tomato fruit. Cold stress promotes the expression of ACS and IDH which may increase the synthesis of citrate, cis-aconitate and succinate. Alanine and leucine had increased contents, which may result from alanine aminotransferase (ALT) and branched-chain amino acid aminotransferase (BcAT)\u2019s high expression levels, respectively. Overall the transcriptomics and metabolomics data in our study explain the molecular mechanisms of the chilling injury and expands our understanding of the complex regulatory mechanisms of a metabolic network in response to chilling injury in tomato fruit.", 
    "genre": "article", 
    "id": "sg:pub.10.1038/s41598-019-41065-9", 
    "inLanguage": "en", 
    "isAccessibleForFree": true, 
    "isFundedItemOf": [
      {
        "id": "sg:grant.7178992", 
        "type": "MonetaryGrant"
      }
    ], 
    "isPartOf": [
      {
        "id": "sg:journal.1045337", 
        "issn": [
          "2045-2322"
        ], 
        "name": "Scientific Reports", 
        "publisher": "Springer Nature", 
        "type": "Periodical"
      }, 
      {
        "issueNumber": "1", 
        "type": "PublicationIssue"
      }, 
      {
        "type": "PublicationVolume", 
        "volumeNumber": "9"
      }
    ], 
    "keywords": [
      "ATP-citrate synthase", 
      "Integrative comparative analyses", 
      "tomato fruit", 
      "high expression levels", 
      "regulatory networks", 
      "complex regulatory network", 
      "complex regulatory mechanisms", 
      "synthesis of citrate", 
      "transcriptomic data", 
      "isocitrate dehydrogenase gene", 
      "dehydrogenase gene", 
      "regulatory mechanisms", 
      "molecular mechanisms", 
      "metabolomics data", 
      "metabolic networks", 
      "cold stress", 
      "content of citrate", 
      "chilling injury", 
      "amino acids", 
      "transcriptomics", 
      "expression levels", 
      "genes", 
      "comparative analysis", 
      "fruit", 
      "expression", 
      "organic acids", 
      "cold-stored fruit", 
      "synthase", 
      "mechanism", 
      "IDH", 
      "acid", 
      "alanine", 
      "succinate", 
      "leucine", 
      "sugars", 
      "metabolites", 
      "content", 
      "analysis", 
      "stress", 
      "understanding", 
      "citrate", 
      "response", 
      "synthesis", 
      "data", 
      "study", 
      "levels", 
      "compounds", 
      "network", 
      "aminotransferase", 
      "injury", 
      "temperature", 
      "alanine aminotransferase", 
      "different contents", 
      "CI tomato fruit", 
      "cold-treated tomato fruit", 
      "expression of ACS", 
      "branched-chain amino acid aminotransferase (BcAT)\u2019s high expression levels", 
      "amino acid aminotransferase (BcAT)\u2019s high expression levels", 
      "acid aminotransferase (BcAT)\u2019s high expression levels", 
      "aminotransferase (BcAT)\u2019s high expression levels", 
      "transcript profiles uncovers complex regulatory network", 
      "profiles uncovers complex regulatory network", 
      "uncovers complex regulatory network"
    ], 
    "name": "Integrative comparative analyses of metabolite and transcript profiles uncovers complex regulatory network in tomato (Solanum lycopersicum L.) fruit undergoing chilling injury", 
    "pagination": "4470", 
    "productId": [
      {
        "name": "dimensions_id", 
        "type": "PropertyValue", 
        "value": [
          "pub.1112769128"
        ]
      }, 
      {
        "name": "doi", 
        "type": "PropertyValue", 
        "value": [
          "10.1038/s41598-019-41065-9"
        ]
      }, 
      {
        "name": "pubmed_id", 
        "type": "PropertyValue", 
        "value": [
          "30872788"
        ]
      }
    ], 
    "sameAs": [
      "https://doi.org/10.1038/s41598-019-41065-9", 
      "https://app.dimensions.ai/details/publication/pub.1112769128"
    ], 
    "sdDataset": "articles", 
    "sdDatePublished": "2021-11-01T18:37", 
    "sdLicense": "https://scigraph.springernature.com/explorer/license/", 
    "sdPublisher": {
      "name": "Springer Nature - SN SciGraph project", 
      "type": "Organization"
    }, 
    "sdSource": "s3://com-springernature-scigraph/baseset/20211101/entities/gbq_results/article/article_823.jsonl", 
    "type": "ScholarlyArticle", 
    "url": "https://doi.org/10.1038/s41598-019-41065-9"
  }
]
 

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.10.1038/s41598-019-41065-9'

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

curl -H 'Accept: application/n-triples' 'https://scigraph.springernature.com/pub.10.1038/s41598-019-41065-9'

Turtle is a human-readable linked data format.

curl -H 'Accept: text/turtle' 'https://scigraph.springernature.com/pub.10.1038/s41598-019-41065-9'

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

curl -H 'Accept: application/rdf+xml' 'https://scigraph.springernature.com/pub.10.1038/s41598-019-41065-9'


 

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

298 TRIPLES      22 PREDICATES      110 URIs      95 LITERALS      21 BLANK NODES

Subject Predicate Object
1 sg:pub.10.1038/s41598-019-41065-9 schema:about N1ac73172eed64a74bf251690f2483887
2 N2d3006045703434ca0787e77274df56d
3 N53700f34e4dd43fda517ab574ea7020a
4 N54e1d12a508d4293bde2b1bf81ba1161
5 N65bb1c9ad75e4eeba4de4d7a3327ca58
6 N75ed7b87a3964ae59bf94662f2f27349
7 N79dee71141c5411b8fe30503d21a72de
8 N82e701b7f4c14d759a2a4435768b2e71
9 N82fe7a8c665c4c7a9c08d795b787e62e
10 Na8443c95c6dc470ba7721c893db40943
11 Nc38279af671d41d98ea8640c365b42fd
12 Nc4da422a70404750afa60532fc6d9b1a
13 Nc8cefc63e104407c8cb63f056a87eeca
14 Ncfa0a79e3f31408a9a7bb960abd7d963
15 anzsrc-for:06
16 anzsrc-for:0604
17 schema:author N688738a196e04b6890bdd574e902952d
18 schema:citation sg:pub.10.1007/bf03195689
19 sg:pub.10.1007/s00018-012-1091-5
20 sg:pub.10.1007/s00425-010-1184-z
21 sg:pub.10.1007/s11103-005-5772-4
22 sg:pub.10.1038/nbt.1621
23 sg:pub.10.1038/nprot.2008.211
24 sg:pub.10.1186/1471-2164-11-210
25 schema:datePublished 2019-03-14
26 schema:datePublishedReg 2019-03-14
27 schema:description Tomato fruit are especially susceptible to chilling injury (CI) when continuously exposed to temperatures below 12 °C. In this study, integrative comparative analyses of transcriptomics and metabolomics data were performed to uncover the regulatory network in CI tomato fruit. Metabolite profiling analysis found that 7 amino acids, 27 organic acids, 16 of sugars and 22 other compounds had a significantly different content while transcriptomics data showed 1735 differentially expressed genes (DEGs) were down-regulated and 1369 were up-regulated in cold-stored fruit. We found that the contents of citrate, cis-aconitate and succinate were increased, which were consistent with the expression of ATP-citrate synthase (ACS) and isocitrate dehydrogenase (IDH) genes in cold-treated tomato fruit. Cold stress promotes the expression of ACS and IDH which may increase the synthesis of citrate, cis-aconitate and succinate. Alanine and leucine had increased contents, which may result from alanine aminotransferase (ALT) and branched-chain amino acid aminotransferase (BcAT)’s high expression levels, respectively. Overall the transcriptomics and metabolomics data in our study explain the molecular mechanisms of the chilling injury and expands our understanding of the complex regulatory mechanisms of a metabolic network in response to chilling injury in tomato fruit.
28 schema:genre article
29 schema:inLanguage en
30 schema:isAccessibleForFree true
31 schema:isPartOf Naa589ac2ab5449d59a3dca54759da48c
32 Ncc130ac22cac475fa5a318c6d5689b7f
33 sg:journal.1045337
34 schema:keywords ATP-citrate synthase
35 CI tomato fruit
36 IDH
37 Integrative comparative analyses
38 acid
39 acid aminotransferase (BcAT)’s high expression levels
40 alanine
41 alanine aminotransferase
42 amino acid aminotransferase (BcAT)’s high expression levels
43 amino acids
44 aminotransferase
45 aminotransferase (BcAT)’s high expression levels
46 analysis
47 branched-chain amino acid aminotransferase (BcAT)’s high expression levels
48 chilling injury
49 citrate
50 cold stress
51 cold-stored fruit
52 cold-treated tomato fruit
53 comparative analysis
54 complex regulatory mechanisms
55 complex regulatory network
56 compounds
57 content
58 content of citrate
59 data
60 dehydrogenase gene
61 different contents
62 expression
63 expression levels
64 expression of ACS
65 fruit
66 genes
67 high expression levels
68 injury
69 isocitrate dehydrogenase gene
70 leucine
71 levels
72 mechanism
73 metabolic networks
74 metabolites
75 metabolomics data
76 molecular mechanisms
77 network
78 organic acids
79 profiles uncovers complex regulatory network
80 regulatory mechanisms
81 regulatory networks
82 response
83 stress
84 study
85 succinate
86 sugars
87 synthase
88 synthesis
89 synthesis of citrate
90 temperature
91 tomato fruit
92 transcript profiles uncovers complex regulatory network
93 transcriptomic data
94 transcriptomics
95 uncovers complex regulatory network
96 understanding
97 schema:name Integrative comparative analyses of metabolite and transcript profiles uncovers complex regulatory network in tomato (Solanum lycopersicum L.) fruit undergoing chilling injury
98 schema:pagination 4470
99 schema:productId N28e4bfa6252b4818b5b1df29674c73e3
100 N81aaf66dfa824389b091b71df49b1ce3
101 Ndfa2866398a64363a13e4c3f284b1607
102 schema:sameAs https://app.dimensions.ai/details/publication/pub.1112769128
103 https://doi.org/10.1038/s41598-019-41065-9
104 schema:sdDatePublished 2021-11-01T18:37
105 schema:sdLicense https://scigraph.springernature.com/explorer/license/
106 schema:sdPublisher N30851528b6bf4782ab16b760cd30c973
107 schema:url https://doi.org/10.1038/s41598-019-41065-9
108 sgo:license sg:explorer/license/
109 sgo:sdDataset articles
110 rdf:type schema:ScholarlyArticle
111 N08584c7337da48b8a2218ba65ee27c47 rdf:first sg:person.010502635174.53
112 rdf:rest Nd1b137bcbcd244df8a001d54b4b6fdbf
113 N15ee4232c04847d1ae93131b50642f06 rdf:first sg:person.0653772561.68
114 rdf:rest Nfeb967b21ca64e9ea94de7554fdc9bc6
115 N1ac73172eed64a74bf251690f2483887 schema:inDefinedTermSet https://www.nlm.nih.gov/mesh/
116 schema:name Stress, Physiological
117 rdf:type schema:DefinedTerm
118 N28e4bfa6252b4818b5b1df29674c73e3 schema:name pubmed_id
119 schema:value 30872788
120 rdf:type schema:PropertyValue
121 N2d3006045703434ca0787e77274df56d schema:inDefinedTermSet https://www.nlm.nih.gov/mesh/
122 schema:name Succinic Acid
123 rdf:type schema:DefinedTerm
124 N30851528b6bf4782ab16b760cd30c973 schema:name Springer Nature - SN SciGraph project
125 rdf:type schema:Organization
126 N40aa672f8f0e446ea68a64c470779379 rdf:first sg:person.01325163206.28
127 rdf:rest N6b84790b2ae547829ad6b09c85e065a1
128 N53700f34e4dd43fda517ab574ea7020a schema:inDefinedTermSet https://www.nlm.nih.gov/mesh/
129 schema:name Metabolomics
130 rdf:type schema:DefinedTerm
131 N53bcd4205c8f4a4184dbdb248e663c5b rdf:first sg:person.016642374137.61
132 rdf:rest N15ee4232c04847d1ae93131b50642f06
133 N54e1d12a508d4293bde2b1bf81ba1161 schema:inDefinedTermSet https://www.nlm.nih.gov/mesh/
134 schema:name Citric Acid
135 rdf:type schema:DefinedTerm
136 N65b7cc2f545f4be79653ba2337923a16 rdf:first Nc792ef0fda34432291b24b6532b4af9d
137 rdf:rest Na9cc4e3b6189488b97a641c2ce960e2e
138 N65bb1c9ad75e4eeba4de4d7a3327ca58 schema:inDefinedTermSet https://www.nlm.nih.gov/mesh/
139 schema:name Cold Temperature
140 rdf:type schema:DefinedTerm
141 N688738a196e04b6890bdd574e902952d rdf:first sg:person.011653225327.29
142 rdf:rest N7f16a89efc5c43058d52bed07e222076
143 N6b84790b2ae547829ad6b09c85e065a1 rdf:first sg:person.0743642653.54
144 rdf:rest Nb955dec792434ec4a2ada79d737039f3
145 N75ed7b87a3964ae59bf94662f2f27349 schema:inDefinedTermSet https://www.nlm.nih.gov/mesh/
146 schema:name Lycopersicon esculentum
147 rdf:type schema:DefinedTerm
148 N79dee71141c5411b8fe30503d21a72de schema:inDefinedTermSet https://www.nlm.nih.gov/mesh/
149 schema:name Gene Regulatory Networks
150 rdf:type schema:DefinedTerm
151 N7f16a89efc5c43058d52bed07e222076 rdf:first sg:person.07705254574.97
152 rdf:rest N85a188c5b86a426b8c586cccd259d12e
153 N81aaf66dfa824389b091b71df49b1ce3 schema:name doi
154 schema:value 10.1038/s41598-019-41065-9
155 rdf:type schema:PropertyValue
156 N82e701b7f4c14d759a2a4435768b2e71 schema:inDefinedTermSet https://www.nlm.nih.gov/mesh/
157 schema:name Aconitic Acid
158 rdf:type schema:DefinedTerm
159 N82fe7a8c665c4c7a9c08d795b787e62e schema:inDefinedTermSet https://www.nlm.nih.gov/mesh/
160 schema:name ATP Citrate (pro-S)-Lyase
161 rdf:type schema:DefinedTerm
162 N85a188c5b86a426b8c586cccd259d12e rdf:first Ne9e88b84429a4ebea9c77a7d04810889
163 rdf:rest N53bcd4205c8f4a4184dbdb248e663c5b
164 Na8443c95c6dc470ba7721c893db40943 schema:inDefinedTermSet https://www.nlm.nih.gov/mesh/
165 schema:name Isocitrate Dehydrogenase
166 rdf:type schema:DefinedTerm
167 Na9cc4e3b6189488b97a641c2ce960e2e rdf:first sg:person.014551250664.77
168 rdf:rest N40aa672f8f0e446ea68a64c470779379
169 Naa589ac2ab5449d59a3dca54759da48c schema:volumeNumber 9
170 rdf:type schema:PublicationVolume
171 Nb955dec792434ec4a2ada79d737039f3 rdf:first sg:person.01106400053.16
172 rdf:rest rdf:nil
173 Nc38279af671d41d98ea8640c365b42fd schema:inDefinedTermSet https://www.nlm.nih.gov/mesh/
174 schema:name Gene Expression Regulation, Plant
175 rdf:type schema:DefinedTerm
176 Nc4da422a70404750afa60532fc6d9b1a schema:inDefinedTermSet https://www.nlm.nih.gov/mesh/
177 schema:name Gene Expression Profiling
178 rdf:type schema:DefinedTerm
179 Nc792ef0fda34432291b24b6532b4af9d schema:affiliation grid-institutes:grid.465230.6
180 schema:familyName Chang
181 schema:givenName Wei
182 rdf:type schema:Person
183 Nc8cefc63e104407c8cb63f056a87eeca schema:inDefinedTermSet https://www.nlm.nih.gov/mesh/
184 schema:name Metabolic Networks and Pathways
185 rdf:type schema:DefinedTerm
186 Ncc130ac22cac475fa5a318c6d5689b7f schema:issueNumber 1
187 rdf:type schema:PublicationIssue
188 Ncfa0a79e3f31408a9a7bb960abd7d963 schema:inDefinedTermSet https://www.nlm.nih.gov/mesh/
189 schema:name Plant Proteins
190 rdf:type schema:DefinedTerm
191 Nd1b137bcbcd244df8a001d54b4b6fdbf rdf:first sg:person.016144211664.30
192 rdf:rest N65b7cc2f545f4be79653ba2337923a16
193 Ndfa2866398a64363a13e4c3f284b1607 schema:name dimensions_id
194 schema:value pub.1112769128
195 rdf:type schema:PropertyValue
196 Ne9e88b84429a4ebea9c77a7d04810889 schema:affiliation grid-institutes:grid.190737.b
197 schema:familyName Wu
198 schema:givenName Meng-Bo
199 rdf:type schema:Person
200 Nfeb967b21ca64e9ea94de7554fdc9bc6 rdf:first sg:person.0613160547.68
201 rdf:rest N08584c7337da48b8a2218ba65ee27c47
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.7178992 http://pending.schema.org/fundedItem sg:pub.10.1038/s41598-019-41065-9
209 rdf:type schema:MonetaryGrant
210 sg:journal.1045337 schema:issn 2045-2322
211 schema:name Scientific Reports
212 schema:publisher Springer Nature
213 rdf:type schema:Periodical
214 sg:person.010502635174.53 schema:affiliation grid-institutes:grid.190737.b
215 schema:familyName Zhang
216 schema:givenName Qiang
217 schema:sameAs https://app.dimensions.ai/discover/publication?and_facet_researcher=ur.010502635174.53
218 rdf:type schema:Person
219 sg:person.01106400053.16 schema:affiliation grid-institutes:grid.190737.b
220 schema:familyName Deng
221 schema:givenName Wei
222 schema:sameAs https://app.dimensions.ai/discover/publication?and_facet_researcher=ur.01106400053.16
223 rdf:type schema:Person
224 sg:person.011653225327.29 schema:affiliation grid-institutes:grid.190737.b
225 schema:familyName Zhang
226 schema:givenName Wen-Fa
227 schema:sameAs https://app.dimensions.ai/discover/publication?and_facet_researcher=ur.011653225327.29
228 rdf:type schema:Person
229 sg:person.01325163206.28 schema:affiliation grid-institutes:grid.190737.b
230 schema:familyName Li
231 schema:givenName Zheng-Guo
232 schema:sameAs https://app.dimensions.ai/discover/publication?and_facet_researcher=ur.01325163206.28
233 rdf:type schema:Person
234 sg:person.014551250664.77 schema:affiliation grid-institutes:grid.465230.6
235 schema:familyName Li
236 schema:givenName Zhi
237 schema:sameAs https://app.dimensions.ai/discover/publication?and_facet_researcher=ur.014551250664.77
238 rdf:type schema:Person
239 sg:person.016144211664.30 schema:affiliation grid-institutes:grid.465230.6
240 schema:familyName Miao
241 schema:givenName Ming-Jun
242 schema:sameAs https://app.dimensions.ai/discover/publication?and_facet_researcher=ur.016144211664.30
243 rdf:type schema:Person
244 sg:person.016642374137.61 schema:affiliation grid-institutes:grid.27860.3b
245 schema:familyName Chan
246 schema:givenName Helen
247 schema:sameAs https://app.dimensions.ai/discover/publication?and_facet_researcher=ur.016642374137.61
248 rdf:type schema:Person
249 sg:person.0613160547.68 schema:affiliation grid-institutes:grid.190737.b
250 schema:familyName Tang
251 schema:givenName Ning
252 schema:sameAs https://app.dimensions.ai/discover/publication?and_facet_researcher=ur.0613160547.68
253 rdf:type schema:Person
254 sg:person.0653772561.68 schema:affiliation grid-institutes:grid.190737.b
255 schema:familyName Yuan
256 schema:givenName Yu-Jin
257 schema:sameAs https://app.dimensions.ai/discover/publication?and_facet_researcher=ur.0653772561.68
258 rdf:type schema:Person
259 sg:person.0743642653.54 schema:affiliation grid-institutes:grid.190737.b
260 schema:familyName Jin
261 schema:givenName Liang
262 schema:sameAs https://app.dimensions.ai/discover/publication?and_facet_researcher=ur.0743642653.54
263 rdf:type schema:Person
264 sg:person.07705254574.97 schema:affiliation grid-institutes:grid.190737.b
265 schema:familyName Gong
266 schema:givenName Ze-Hao
267 schema:sameAs https://app.dimensions.ai/discover/publication?and_facet_researcher=ur.07705254574.97
268 rdf:type schema:Person
269 sg:pub.10.1007/bf03195689 schema:sameAs https://app.dimensions.ai/details/publication/pub.1019887563
270 https://doi.org/10.1007/bf03195689
271 rdf:type schema:CreativeWork
272 sg:pub.10.1007/s00018-012-1091-5 schema:sameAs https://app.dimensions.ai/details/publication/pub.1041780058
273 https://doi.org/10.1007/s00018-012-1091-5
274 rdf:type schema:CreativeWork
275 sg:pub.10.1007/s00425-010-1184-z schema:sameAs https://app.dimensions.ai/details/publication/pub.1050199897
276 https://doi.org/10.1007/s00425-010-1184-z
277 rdf:type schema:CreativeWork
278 sg:pub.10.1007/s11103-005-5772-4 schema:sameAs https://app.dimensions.ai/details/publication/pub.1038364433
279 https://doi.org/10.1007/s11103-005-5772-4
280 rdf:type schema:CreativeWork
281 sg:pub.10.1038/nbt.1621 schema:sameAs https://app.dimensions.ai/details/publication/pub.1031035095
282 https://doi.org/10.1038/nbt.1621
283 rdf:type schema:CreativeWork
284 sg:pub.10.1038/nprot.2008.211 schema:sameAs https://app.dimensions.ai/details/publication/pub.1039987283
285 https://doi.org/10.1038/nprot.2008.211
286 rdf:type schema:CreativeWork
287 sg:pub.10.1186/1471-2164-11-210 schema:sameAs https://app.dimensions.ai/details/publication/pub.1010054652
288 https://doi.org/10.1186/1471-2164-11-210
289 rdf:type schema:CreativeWork
290 grid-institutes:grid.190737.b schema:alternateName Key Laboratory of Plant Hormones and Development Regulation of Chongqing, School of Life Sciences, Chongqing University, 401331, Chongqing, China
291 schema:name Key Laboratory of Plant Hormones and Development Regulation of Chongqing, School of Life Sciences, Chongqing University, 401331, Chongqing, China
292 rdf:type schema:Organization
293 grid-institutes:grid.27860.3b schema:alternateName Department of Plant Sciences, University of California, 95616, Davis, CA, USA
294 schema:name Department of Plant Sciences, University of California, 95616, Davis, CA, USA
295 rdf:type schema:Organization
296 grid-institutes:grid.465230.6 schema:alternateName Horticulture Research Institute, Sichuan Academy of Agricultural Sciences, 610066, Chengdu, China
297 schema:name Horticulture Research Institute, Sichuan Academy of Agricultural Sciences, 610066, Chengdu, China
298 rdf:type schema:Organization
 




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


...