Ontology type: schema:ScholarlyArticle Open Access: True
2019-12
AUTHORSJoseph Swift, Mark Adame, Daniel Tranchina, Amelia Henry, Gloria M. Coruzzi
ABSTRACTChanges in nutrient dose have dramatic effects on gene expression and development. One outstanding question is whether organisms respond to changes in absolute nutrient amount (moles) vs. its concentration in water (molarity). This question is particularly relevant to plants, as soil drying can alter nutrient concentration, without changing its absolute amount. To compare the effects of amount vs. concentration, we expose rice to a factorial matrix varying the dose of nitrogen (N) and water (W) over a range of combinations, and quantify transcriptome and phenotype responses. Using linear models, we identify distinct dose responses to either N-moles, W-volume, N-molarity (N/W), or their synergistic interaction (N×W). Importantly, genes whose expression patterns are best explained by N-dose and W interactions (N/W or N×W) in seedlings are associated with crop outcomes in replicated field trials. Such N-by-W responsive genes may assist future efforts to develop crops resilient to increasingly arid, low nutrient soils. More... »
PAGES1374
http://scigraph.springernature.com/pub.10.1038/s41467-019-09287-7
DOIhttp://dx.doi.org/10.1038/s41467-019-09287-7
DIMENSIONShttps://app.dimensions.ai/details/publication/pub.1112984529
PUBMEDhttps://www.ncbi.nlm.nih.gov/pubmed/30914651
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"
}
],
"author": [
{
"affiliation": {
"alternateName": "New York University",
"id": "https://www.grid.ac/institutes/grid.137628.9",
"name": [
"Center for Genomics and Systems Biology, Department of Biology, New York University, 10003, New York, NY, USA"
],
"type": "Organization"
},
"familyName": "Swift",
"givenName": "Joseph",
"type": "Person"
},
{
"affiliation": {
"alternateName": "New York University",
"id": "https://www.grid.ac/institutes/grid.137628.9",
"name": [
"Center for Genomics and Systems Biology, Department of Biology, New York University, 10003, New York, NY, USA"
],
"type": "Organization"
},
"familyName": "Adame",
"givenName": "Mark",
"type": "Person"
},
{
"affiliation": {
"alternateName": "Courant Institute of Mathematical Sciences",
"id": "https://www.grid.ac/institutes/grid.482020.c",
"name": [
"Center for Genomics and Systems Biology, Department of Biology, New York University, 10003, New York, NY, USA",
"Courant Institute for Mathematical Sciences, New York University, 10012, New York, NY, USA"
],
"type": "Organization"
},
"familyName": "Tranchina",
"givenName": "Daniel",
"type": "Person"
},
{
"affiliation": {
"alternateName": "International Rice Research Institute",
"id": "https://www.grid.ac/institutes/grid.419387.0",
"name": [
"International Rice Research Institute, Los Banos, 4031, Laguna, Philippines"
],
"type": "Organization"
},
"familyName": "Henry",
"givenName": "Amelia",
"type": "Person"
},
{
"affiliation": {
"alternateName": "New York University",
"id": "https://www.grid.ac/institutes/grid.137628.9",
"name": [
"Center for Genomics and Systems Biology, Department of Biology, New York University, 10003, New York, NY, USA"
],
"type": "Organization"
},
"familyName": "Coruzzi",
"givenName": "Gloria M.",
"type": "Person"
}
],
"citation": [
{
"id": "https://doi.org/10.1101/gr.1224503",
"sameAs": [
"https://app.dimensions.ai/details/publication/pub.1000505228"
],
"type": "CreativeWork"
},
{
"id": "https://doi.org/10.1071/fp03046",
"sameAs": [
"https://app.dimensions.ai/details/publication/pub.1001465912"
],
"type": "CreativeWork"
},
{
"id": "sg:pub.10.1007/s11427-011-4191-9",
"sameAs": [
"https://app.dimensions.ai/details/publication/pub.1002774730",
"https://doi.org/10.1007/s11427-011-4191-9"
],
"type": "CreativeWork"
},
{
"id": "https://doi.org/10.1093/pcp/pcs003",
"sameAs": [
"https://app.dimensions.ai/details/publication/pub.1004994715"
],
"type": "CreativeWork"
},
{
"id": "https://doi.org/10.1104/pp.111.187898",
"sameAs": [
"https://app.dimensions.ai/details/publication/pub.1009045372"
],
"type": "CreativeWork"
},
{
"id": "https://doi.org/10.1093/jexbot/51.350.1531",
"sameAs": [
"https://app.dimensions.ai/details/publication/pub.1010858096"
],
"type": "CreativeWork"
},
{
"id": "https://doi.org/10.1016/j.apgeog.2014.11.024",
"sameAs": [
"https://app.dimensions.ai/details/publication/pub.1012122673"
],
"type": "CreativeWork"
},
{
"id": "sg:pub.10.1007/s004420050145",
"sameAs": [
"https://app.dimensions.ai/details/publication/pub.1012305745",
"https://doi.org/10.1007/s004420050145"
],
"type": "CreativeWork"
},
{
"id": "https://doi.org/10.1371/journal.pgen.1000492",
"sameAs": [
"https://app.dimensions.ai/details/publication/pub.1013485937"
],
"type": "CreativeWork"
},
{
"id": "sg:pub.10.1186/s13059-014-0550-8",
"sameAs": [
"https://app.dimensions.ai/details/publication/pub.1015222646",
"https://doi.org/10.1186/s13059-014-0550-8"
],
"type": "CreativeWork"
},
{
"id": "sg:pub.10.1186/s13059-014-0550-8",
"sameAs": [
"https://app.dimensions.ai/details/publication/pub.1015222646",
"https://doi.org/10.1186/s13059-014-0550-8"
],
"type": "CreativeWork"
},
{
"id": "https://doi.org/10.1046/j.1365-313x.2000.00812.x",
"sameAs": [
"https://app.dimensions.ai/details/publication/pub.1016706398"
],
"type": "CreativeWork"
},
{
"id": "https://doi.org/10.1104/pp.109.147025",
"sameAs": [
"https://app.dimensions.ai/details/publication/pub.1017565764"
],
"type": "CreativeWork"
},
{
"id": "https://doi.org/10.1104/pp.103.021253",
"sameAs": [
"https://app.dimensions.ai/details/publication/pub.1018030782"
],
"type": "CreativeWork"
},
{
"id": "sg:pub.10.1186/1471-2229-9-120",
"sameAs": [
"https://app.dimensions.ai/details/publication/pub.1019529502",
"https://doi.org/10.1186/1471-2229-9-120"
],
"type": "CreativeWork"
},
{
"id": "sg:pub.10.1007/s00122-009-0988-3",
"sameAs": [
"https://app.dimensions.ai/details/publication/pub.1019793487",
"https://doi.org/10.1007/s00122-009-0988-3"
],
"type": "CreativeWork"
},
{
"id": "sg:pub.10.1007/s00122-009-0988-3",
"sameAs": [
"https://app.dimensions.ai/details/publication/pub.1019793487",
"https://doi.org/10.1007/s00122-009-0988-3"
],
"type": "CreativeWork"
},
{
"id": "https://doi.org/10.1111/j.1399-3054.1962.tb08052.x",
"sameAs": [
"https://app.dimensions.ai/details/publication/pub.1023703429"
],
"type": "CreativeWork"
},
{
"id": "https://doi.org/10.1016/j.fcr.2007.10.004",
"sameAs": [
"https://app.dimensions.ai/details/publication/pub.1023849635"
],
"type": "CreativeWork"
},
{
"id": "sg:pub.10.1186/1471-2164-14-3",
"sameAs": [
"https://app.dimensions.ai/details/publication/pub.1025375368",
"https://doi.org/10.1186/1471-2164-14-3"
],
"type": "CreativeWork"
},
{
"id": "sg:pub.10.1007/s12571-012-0168-1",
"sameAs": [
"https://app.dimensions.ai/details/publication/pub.1029572517",
"https://doi.org/10.1007/s12571-012-0168-1"
],
"type": "CreativeWork"
},
{
"id": "https://doi.org/10.1073/pnas.1108684108",
"sameAs": [
"https://app.dimensions.ai/details/publication/pub.1034438276"
],
"type": "CreativeWork"
},
{
"id": "https://doi.org/10.1093/aob/mcs293",
"sameAs": [
"https://app.dimensions.ai/details/publication/pub.1034803568"
],
"type": "CreativeWork"
},
{
"id": "sg:pub.10.1007/s10265-011-0412-3",
"sameAs": [
"https://app.dimensions.ai/details/publication/pub.1035353512",
"https://doi.org/10.1007/s10265-011-0412-3"
],
"type": "CreativeWork"
},
{
"id": "https://doi.org/10.1016/j.cell.2015.02.041",
"sameAs": [
"https://app.dimensions.ai/details/publication/pub.1035769569"
],
"type": "CreativeWork"
},
{
"id": "https://doi.org/10.1071/pp9840539",
"sameAs": [
"https://app.dimensions.ai/details/publication/pub.1037418521"
],
"type": "CreativeWork"
},
{
"id": "https://doi.org/10.1111/j.1365-313x.2010.04274.x",
"sameAs": [
"https://app.dimensions.ai/details/publication/pub.1039774090"
],
"type": "CreativeWork"
},
{
"id": "https://doi.org/10.1111/j.1365-313x.2010.04274.x",
"sameAs": [
"https://app.dimensions.ai/details/publication/pub.1039774090"
],
"type": "CreativeWork"
},
{
"id": "https://doi.org/10.1093/pcp/pcs097",
"sameAs": [
"https://app.dimensions.ai/details/publication/pub.1039795700"
],
"type": "CreativeWork"
},
{
"id": "https://doi.org/10.1073/pnas.0800211105",
"sameAs": [
"https://app.dimensions.ai/details/publication/pub.1040912983"
],
"type": "CreativeWork"
},
{
"id": "https://doi.org/10.1016/j.cell.2009.07.004",
"sameAs": [
"https://app.dimensions.ai/details/publication/pub.1043069085"
],
"type": "CreativeWork"
},
{
"id": "https://doi.org/10.3389/fpls.2014.00086",
"sameAs": [
"https://app.dimensions.ai/details/publication/pub.1043259537"
],
"type": "CreativeWork"
},
{
"id": "sg:pub.10.1186/1939-8433-6-4",
"sameAs": [
"https://app.dimensions.ai/details/publication/pub.1043618498",
"https://doi.org/10.1186/1939-8433-6-4"
],
"type": "CreativeWork"
},
{
"id": "https://doi.org/10.1016/j.agwat.2014.08.006",
"sameAs": [
"https://app.dimensions.ai/details/publication/pub.1044469914"
],
"type": "CreativeWork"
},
{
"id": "https://doi.org/10.1111/j.1365-313x.2008.03695.x",
"sameAs": [
"https://app.dimensions.ai/details/publication/pub.1045312513"
],
"type": "CreativeWork"
},
{
"id": "https://doi.org/10.1126/science.1185383",
"sameAs": [
"https://app.dimensions.ai/details/publication/pub.1048131164"
],
"type": "CreativeWork"
},
{
"id": "sg:pub.10.1186/1752-0509-1-54",
"sameAs": [
"https://app.dimensions.ai/details/publication/pub.1052159443",
"https://doi.org/10.1186/1752-0509-1-54"
],
"type": "CreativeWork"
},
{
"id": "https://doi.org/10.1093/bioinformatics/btu638",
"sameAs": [
"https://app.dimensions.ai/details/publication/pub.1053282140"
],
"type": "CreativeWork"
},
{
"id": "https://doi.org/10.1126/scisignal.aaa4829",
"sameAs": [
"https://app.dimensions.ai/details/publication/pub.1062685461"
],
"type": "CreativeWork"
},
{
"id": "https://doi.org/10.1126/scisignal.aaf2768",
"sameAs": [
"https://app.dimensions.ai/details/publication/pub.1062686048"
],
"type": "CreativeWork"
},
{
"id": "https://doi.org/10.1146/annurev-arplant-043014-114648",
"sameAs": [
"https://app.dimensions.ai/details/publication/pub.1063176491"
],
"type": "CreativeWork"
},
{
"id": "https://doi.org/10.4161/psb.5.12.13856",
"sameAs": [
"https://app.dimensions.ai/details/publication/pub.1072309183"
],
"type": "CreativeWork"
},
{
"id": "https://doi.org/10.1016/j.pbi.2017.05.010",
"sameAs": [
"https://app.dimensions.ai/details/publication/pub.1085968847"
],
"type": "CreativeWork"
},
{
"id": "https://doi.org/10.1073/pnas.1721487115",
"sameAs": [
"https://app.dimensions.ai/details/publication/pub.1104019057"
],
"type": "CreativeWork"
}
],
"datePublished": "2019-12",
"datePublishedReg": "2019-12-01",
"description": "Changes in nutrient dose have dramatic effects on gene expression and development. One outstanding question is whether organisms respond to changes in absolute nutrient amount (moles) vs. its concentration in water (molarity). This question is particularly relevant to plants, as soil drying can alter nutrient concentration, without changing its absolute amount. To compare the effects of amount vs. concentration, we expose rice to a factorial matrix varying the dose of nitrogen (N) and water (W) over a range of combinations, and quantify transcriptome and phenotype responses. Using linear models, we identify distinct dose responses to either N-moles, W-volume, N-molarity (N/W), or their synergistic interaction (N\u00d7W). Importantly, genes whose expression patterns are best explained by N-dose and W interactions (N/W or N\u00d7W) in seedlings are associated with crop outcomes in replicated field trials. Such N-by-W responsive genes may assist future efforts to develop crops resilient to increasingly arid, low nutrient soils.",
"genre": "research_article",
"id": "sg:pub.10.1038/s41467-019-09287-7",
"inLanguage": [
"en"
],
"isAccessibleForFree": true,
"isFundedItemOf": [
{
"id": "sg:grant.3053960",
"type": "MonetaryGrant"
}
],
"isPartOf": [
{
"id": "sg:journal.1043282",
"issn": [
"2041-1723"
],
"name": "Nature Communications",
"type": "Periodical"
},
{
"issueNumber": "1",
"type": "PublicationIssue"
},
{
"type": "PublicationVolume",
"volumeNumber": "10"
}
],
"name": "Water impacts nutrient dose responses genome-wide to affect crop production",
"pagination": "1374",
"productId": [
{
"name": "readcube_id",
"type": "PropertyValue",
"value": [
"449f794b96320f727c7986b51a63dbcb268bb4fc72be2eed7940405d04d5c6f3"
]
},
{
"name": "pubmed_id",
"type": "PropertyValue",
"value": [
"30914651"
]
},
{
"name": "nlm_unique_id",
"type": "PropertyValue",
"value": [
"101528555"
]
},
{
"name": "doi",
"type": "PropertyValue",
"value": [
"10.1038/s41467-019-09287-7"
]
},
{
"name": "dimensions_id",
"type": "PropertyValue",
"value": [
"pub.1112984529"
]
}
],
"sameAs": [
"https://doi.org/10.1038/s41467-019-09287-7",
"https://app.dimensions.ai/details/publication/pub.1112984529"
],
"sdDataset": "articles",
"sdDatePublished": "2019-04-11T13:48",
"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/v90/0000000371_0000000371/records_130792_00000006.jsonl",
"type": "ScholarlyArticle",
"url": "https://www.nature.com/articles/s41467-019-09287-7"
}
]
Download the RDF metadata as: json-ld nt turtle xml License info
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/s41467-019-09287-7'
N-Triples is a line-based linked data format ideal for batch operations.
curl -H 'Accept: application/n-triples' 'https://scigraph.springernature.com/pub.10.1038/s41467-019-09287-7'
Turtle is a human-readable linked data format.
curl -H 'Accept: text/turtle' 'https://scigraph.springernature.com/pub.10.1038/s41467-019-09287-7'
RDF/XML is a standard XML format for linked data.
curl -H 'Accept: application/rdf+xml' 'https://scigraph.springernature.com/pub.10.1038/s41467-019-09287-7'
This table displays all metadata directly associated to this object as RDF triples.
233 TRIPLES
21 PREDICATES
70 URIs
21 LITERALS
9 BLANK NODES