The Biofuel Feedstock Genomics Resource: a web-based portal and database to enable functional genomics of plant biofuel feedstock species.
Identifieur interne : 002893 ( Main/Exploration ); précédent : 002892; suivant : 002894The Biofuel Feedstock Genomics Resource: a web-based portal and database to enable functional genomics of plant biofuel feedstock species.
Auteurs : Kevin L. Childs [États-Unis] ; Kranti Konganti ; C Robin BuellSource :
- Database : the journal of biological databases and curation [ 1758-0463 ] ; 2012.
Descripteurs français
- KwdFr :
- MESH :
English descriptors
- KwdEn :
- MESH :
- chemical : Biofuels.
- Biomass, Database Management Systems, Databases, Genetic, Genome, Plant, Genomics, Internet, Transcriptome.
Abstract
Major feedstock sources for future biofuel production are likely to be high biomass producing plant species such as poplar, pine, switchgrass, sorghum and maize. One active area of research in these species is genome-enabled improvement of lignocellulosic biofuel feedstock quality and yield. To facilitate genomic-based investigations in these species, we developed the Biofuel Feedstock Genomic Resource (BFGR), a database and web-portal that provides high-quality, uniform and integrated functional annotation of gene and transcript assembly sequences from species of interest to lignocellulosic biofuel feedstock researchers. The BFGR includes sequence data from 54 species and permits researchers to view, analyze and obtain annotation at the gene, transcript, protein and genome level. Annotation of biochemical pathways permits the identification of key genes and transcripts central to the improvement of lignocellulosic properties in these species. The integrated nature of the BFGR in terms of annotation methods, orthologous/paralogous relationships and linkage to seven species with complete genome sequences allows comparative analyses for biofuel feedstock species with limited sequence resources. Database URL: http://bfgr.plantbiology.msu.edu.
DOI: 10.1093/database/bar061
PubMed: 22250003
PubMed Central: PMC3259624
Affiliations:
Links toward previous steps (curation, corpus...)
Le document en format XML
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Childs</name><affiliation wicri:level="4"><nlm:affiliation>Department of Plant Biology, Michigan State University, East Lansing, MI 48824, USA. kchilds@plantbiology.msu.edu</nlm:affiliation><country xml:lang="fr">États-Unis</country><wicri:regionArea>Department of Plant Biology, Michigan State University, East Lansing, MI 48824</wicri:regionArea><placeName><region type="state">Michigan</region><settlement type="city">East Lansing</settlement></placeName><orgName type="university">Université d'État du Michigan</orgName></affiliation></author><author><name sortKey="Konganti, Kranti" sort="Konganti, Kranti" uniqKey="Konganti K" first="Kranti" last="Konganti">Kranti Konganti</name></author><author><name sortKey="Buell, C Robin" sort="Buell, C Robin" uniqKey="Buell C" first="C Robin" last="Buell">C Robin Buell</name></author></titleStmt><publicationStmt><idno type="wicri:source">PubMed</idno><date when="2012">2012</date><idno type="RBID">pubmed:22250003</idno><idno type="pmid">22250003</idno><idno type="doi">10.1093/database/bar061</idno><idno type="pmc">PMC3259624</idno><idno type="wicri:Area/Main/Corpus">002B67</idno><idno type="wicri:explorRef" wicri:stream="Main" wicri:step="Corpus" wicri:corpus="PubMed">002B67</idno><idno type="wicri:Area/Main/Curation">002B67</idno><idno type="wicri:explorRef" wicri:stream="Main" wicri:step="Curation">002B67</idno><idno type="wicri:Area/Main/Exploration">002B67</idno></publicationStmt><sourceDesc><biblStruct><analytic><title xml:lang="en">The Biofuel Feedstock Genomics Resource: a web-based portal and database to enable functional genomics of plant biofuel feedstock species.</title><author><name sortKey="Childs, Kevin L" sort="Childs, Kevin L" uniqKey="Childs K" first="Kevin L" last="Childs">Kevin L. Childs</name><affiliation wicri:level="4"><nlm:affiliation>Department of Plant Biology, Michigan State University, East Lansing, MI 48824, USA. kchilds@plantbiology.msu.edu</nlm:affiliation><country xml:lang="fr">États-Unis</country><wicri:regionArea>Department of Plant Biology, Michigan State University, East Lansing, MI 48824</wicri:regionArea><placeName><region type="state">Michigan</region><settlement type="city">East Lansing</settlement></placeName><orgName type="university">Université d'État du Michigan</orgName></affiliation></author><author><name sortKey="Konganti, Kranti" sort="Konganti, Kranti" uniqKey="Konganti K" first="Kranti" last="Konganti">Kranti Konganti</name></author><author><name sortKey="Buell, C Robin" sort="Buell, C Robin" uniqKey="Buell C" first="C Robin" last="Buell">C Robin Buell</name></author></analytic><series><title level="j">Database : the journal of biological databases and curation</title><idno type="eISSN">1758-0463</idno><imprint><date when="2012" type="published">2012</date></imprint></series></biblStruct></sourceDesc></fileDesc><profileDesc><textClass><keywords scheme="KwdEn" xml:lang="en"><term>Biofuels (MeSH)</term><term>Biomass (MeSH)</term><term>Database Management Systems (MeSH)</term><term>Databases, Genetic (MeSH)</term><term>Genome, Plant (MeSH)</term><term>Genomics (MeSH)</term><term>Internet (MeSH)</term><term>Transcriptome (MeSH)</term></keywords><keywords scheme="KwdFr" xml:lang="fr"><term>Bases de données génétiques (MeSH)</term><term>Biocarburants (MeSH)</term><term>Biomasse (MeSH)</term><term>Génome végétal (MeSH)</term><term>Génomique (MeSH)</term><term>Internet (MeSH)</term><term>Systèmes de gestion de bases de données (MeSH)</term><term>Transcriptome (MeSH)</term></keywords><keywords scheme="MESH" type="chemical" xml:lang="en"><term>Biofuels</term></keywords><keywords scheme="MESH" xml:lang="en"><term>Biomass</term><term>Database Management Systems</term><term>Databases, Genetic</term><term>Genome, Plant</term><term>Genomics</term><term>Internet</term><term>Transcriptome</term></keywords><keywords scheme="MESH" xml:lang="fr"><term>Bases de données génétiques</term><term>Biocarburants</term><term>Biomasse</term><term>Génome végétal</term><term>Génomique</term><term>Internet</term><term>Systèmes de gestion de bases de données</term><term>Transcriptome</term></keywords></textClass></profileDesc></teiHeader><front><div type="abstract" xml:lang="en">Major feedstock sources for future biofuel production are likely to be high biomass producing plant species such as poplar, pine, switchgrass, sorghum and maize. One active area of research in these species is genome-enabled improvement of lignocellulosic biofuel feedstock quality and yield. To facilitate genomic-based investigations in these species, we developed the Biofuel Feedstock Genomic Resource (BFGR), a database and web-portal that provides high-quality, uniform and integrated functional annotation of gene and transcript assembly sequences from species of interest to lignocellulosic biofuel feedstock researchers. The BFGR includes sequence data from 54 species and permits researchers to view, analyze and obtain annotation at the gene, transcript, protein and genome level. Annotation of biochemical pathways permits the identification of key genes and transcripts central to the improvement of lignocellulosic properties in these species. The integrated nature of the BFGR in terms of annotation methods, orthologous/paralogous relationships and linkage to seven species with complete genome sequences allows comparative analyses for biofuel feedstock species with limited sequence resources. Database URL: http://bfgr.plantbiology.msu.edu.</div></front></TEI><pubmed><MedlineCitation Status="MEDLINE" Owner="NLM"><PMID Version="1">22250003</PMID><DateCompleted><Year>2012</Year><Month>05</Month><Day>07</Day></DateCompleted><DateRevised><Year>2018</Year><Month>11</Month><Day>13</Day></DateRevised><Article PubModel="Electronic-Print"><Journal><ISSN IssnType="Electronic">1758-0463</ISSN><JournalIssue CitedMedium="Internet"><Volume>2012</Volume><PubDate><Year>2012</Year></PubDate></JournalIssue><Title>Database : the journal of biological databases and curation</Title><ISOAbbreviation>Database (Oxford)</ISOAbbreviation></Journal><ArticleTitle>The Biofuel Feedstock Genomics Resource: a web-based portal and database to enable functional genomics of plant biofuel feedstock species.</ArticleTitle><Pagination><MedlinePgn>bar061</MedlinePgn></Pagination><ELocationID EIdType="doi" ValidYN="Y">10.1093/database/bar061</ELocationID><Abstract><AbstractText>Major feedstock sources for future biofuel production are likely to be high biomass producing plant species such as poplar, pine, switchgrass, sorghum and maize. One active area of research in these species is genome-enabled improvement of lignocellulosic biofuel feedstock quality and yield. To facilitate genomic-based investigations in these species, we developed the Biofuel Feedstock Genomic Resource (BFGR), a database and web-portal that provides high-quality, uniform and integrated functional annotation of gene and transcript assembly sequences from species of interest to lignocellulosic biofuel feedstock researchers. The BFGR includes sequence data from 54 species and permits researchers to view, analyze and obtain annotation at the gene, transcript, protein and genome level. Annotation of biochemical pathways permits the identification of key genes and transcripts central to the improvement of lignocellulosic properties in these species. The integrated nature of the BFGR in terms of annotation methods, orthologous/paralogous relationships and linkage to seven species with complete genome sequences allows comparative analyses for biofuel feedstock species with limited sequence resources. 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