SorGSD: a sorghum genome SNP database
Background Sorghum (Sorghum bicolor) is one of the most important cereal crops globally and a potential energy plant for biofuel production. In order to explore genetic gain for a range of important quantitative traits, such as drought and heat tolerance, grain yield, stem sugar accumulation, and bi...
Ausführliche Beschreibung
Gespeichert in:
| Autor*in: |
Luo, Hong [verfasserIn] |
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| Format: |
E-Artikel |
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| Sprache: |
Englisch |
| Erschienen: |
2016 |
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| Schlagwörter: |
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| Anmerkung: |
© Luo et al. 2016 |
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| Übergeordnetes Werk: |
Enthalten in: Biotechnology for biofuels - London : BioMed Central, 2008, 9(2016), 1 vom: 07. Jan. |
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| Übergeordnetes Werk: |
volume:9 ; year:2016 ; number:1 ; day:07 ; month:01 |
| Links: |
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| DOI / URN: |
10.1186/s13068-015-0415-8 |
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| Katalog-ID: |
SPR030148545 |
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| 520 | |a Background Sorghum (Sorghum bicolor) is one of the most important cereal crops globally and a potential energy plant for biofuel production. In order to explore genetic gain for a range of important quantitative traits, such as drought and heat tolerance, grain yield, stem sugar accumulation, and biomass production, via the use of molecular breeding and genomic selection strategies, knowledge of the available genetic variation and the underlying sequence polymorphisms, is required. Results Based on the assembled and annotated genome sequences of Sorghum bicolor (v2.1) and the recently published sorghum re-sequencing data, ~62.9 M SNPs were identified among 48 sorghum accessions and included in a newly developed sorghum genome SNP database SorGSD (http://sorgsd.big.ac.cn). The diverse panel of 48 sorghum lines can be classified into four groups, improved varieties, landraces, wild and weedy sorghums, and a wild relative Sorghum propinquum. SorGSD has a web-based query interface to search or browse SNPs from individual accessions, or to compare SNPs among several lines. The query results can be visualized as text format in tables, or rendered as graphics in a genome browser. Users may find useful annotation from query results including type of SNPs such as synonymous or non-synonymous SNPs, start, stop of splice variants, chromosome locations, and links to the annotation on Phytozome (www.phytozome.net) sorghum genome database. In addition, general information related to sorghum research such as online sorghum resources and literature references can also be found on the website. All the SNP data and annotations can be freely download from the website. Conclusions SorGSD is a comprehensive web-portal providing a database of large-scale genome variation across all racial types of cultivated sorghum and wild relatives. It can serve as a bioinformatics platform for a range of genomics and molecular breeding activities for sorghum and for other $ C_{4} $ grasses. | ||
| 650 | 4 | |a Sorghum |7 (dpeaa)DE-He213 | |
| 650 | 4 | |a Bio-energy plant |7 (dpeaa)DE-He213 | |
| 650 | 4 | |a Genome variation |7 (dpeaa)DE-He213 | |
| 650 | 4 | |a SNPs |7 (dpeaa)DE-He213 | |
| 650 | 4 | |a Database curation |7 (dpeaa)DE-He213 | |
| 700 | 1 | |a Zhao, Wenming |4 aut | |
| 700 | 1 | |a Wang, Yanqing |4 aut | |
| 700 | 1 | |a Xia, Yan |4 aut | |
| 700 | 1 | |a Wu, Xiaoyuan |4 aut | |
| 700 | 1 | |a Zhang, Limin |4 aut | |
| 700 | 1 | |a Tang, Bixia |4 aut | |
| 700 | 1 | |a Zhu, Junwei |4 aut | |
| 700 | 1 | |a Fang, Lu |4 aut | |
| 700 | 1 | |a Du, Zhenglin |4 aut | |
| 700 | 1 | |a Bekele, Wubishet A. |4 aut | |
| 700 | 1 | |a Tai, Shuaishuai |4 aut | |
| 700 | 1 | |a Jordan, David R. |4 aut | |
| 700 | 1 | |a Godwin, Ian D. |4 aut | |
| 700 | 1 | |a Snowdon, Rod J. |4 aut | |
| 700 | 1 | |a Mace, Emma S. |4 aut | |
| 700 | 1 | |a Luo, Jingchu |4 aut | |
| 700 | 1 | |a Jing, Hai-Chun |4 aut | |
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10.1186/s13068-015-0415-8 doi (DE-627)SPR030148545 (SPR)s13068-015-0415-8-e DE-627 ger DE-627 rakwb eng Luo, Hong verfasserin aut SorGSD: a sorghum genome SNP database 2016 Text txt rdacontent Computermedien c rdamedia Online-Ressource cr rdacarrier © Luo et al. 2016 Background Sorghum (Sorghum bicolor) is one of the most important cereal crops globally and a potential energy plant for biofuel production. In order to explore genetic gain for a range of important quantitative traits, such as drought and heat tolerance, grain yield, stem sugar accumulation, and biomass production, via the use of molecular breeding and genomic selection strategies, knowledge of the available genetic variation and the underlying sequence polymorphisms, is required. Results Based on the assembled and annotated genome sequences of Sorghum bicolor (v2.1) and the recently published sorghum re-sequencing data, ~62.9 M SNPs were identified among 48 sorghum accessions and included in a newly developed sorghum genome SNP database SorGSD (http://sorgsd.big.ac.cn). The diverse panel of 48 sorghum lines can be classified into four groups, improved varieties, landraces, wild and weedy sorghums, and a wild relative Sorghum propinquum. SorGSD has a web-based query interface to search or browse SNPs from individual accessions, or to compare SNPs among several lines. The query results can be visualized as text format in tables, or rendered as graphics in a genome browser. Users may find useful annotation from query results including type of SNPs such as synonymous or non-synonymous SNPs, start, stop of splice variants, chromosome locations, and links to the annotation on Phytozome (www.phytozome.net) sorghum genome database. In addition, general information related to sorghum research such as online sorghum resources and literature references can also be found on the website. All the SNP data and annotations can be freely download from the website. Conclusions SorGSD is a comprehensive web-portal providing a database of large-scale genome variation across all racial types of cultivated sorghum and wild relatives. It can serve as a bioinformatics platform for a range of genomics and molecular breeding activities for sorghum and for other $ C_{4} $ grasses. Sorghum (dpeaa)DE-He213 Bio-energy plant (dpeaa)DE-He213 Genome variation (dpeaa)DE-He213 SNPs (dpeaa)DE-He213 Database curation (dpeaa)DE-He213 Zhao, Wenming aut Wang, Yanqing aut Xia, Yan aut Wu, Xiaoyuan aut Zhang, Limin aut Tang, Bixia aut Zhu, Junwei aut Fang, Lu aut Du, Zhenglin aut Bekele, Wubishet A. aut Tai, Shuaishuai aut Jordan, David R. aut Godwin, Ian D. aut Snowdon, Rod J. aut Mace, Emma S. aut Luo, Jingchu aut Jing, Hai-Chun aut Enthalten in Biotechnology for biofuels London : BioMed Central, 2008 9(2016), 1 vom: 07. Jan. (DE-627)563167882 (DE-600)2421351-2 1754-6834 nnns volume:9 year:2016 number:1 day:07 month:01 https://dx.doi.org/10.1186/s13068-015-0415-8 kostenfrei Volltext GBV_USEFLAG_A SYSFLAG_A GBV_SPRINGER SSG-OLC-PHA GBV_ILN_11 GBV_ILN_20 GBV_ILN_22 GBV_ILN_23 GBV_ILN_24 GBV_ILN_31 GBV_ILN_39 GBV_ILN_40 GBV_ILN_60 GBV_ILN_62 GBV_ILN_63 GBV_ILN_65 GBV_ILN_69 GBV_ILN_70 GBV_ILN_73 GBV_ILN_74 GBV_ILN_95 GBV_ILN_105 GBV_ILN_110 GBV_ILN_151 GBV_ILN_161 GBV_ILN_170 GBV_ILN_206 GBV_ILN_213 GBV_ILN_230 GBV_ILN_285 GBV_ILN_293 GBV_ILN_602 GBV_ILN_2003 GBV_ILN_2005 GBV_ILN_2009 GBV_ILN_2011 GBV_ILN_2014 GBV_ILN_2027 GBV_ILN_2055 GBV_ILN_2108 GBV_ILN_2111 GBV_ILN_2119 GBV_ILN_4012 GBV_ILN_4037 GBV_ILN_4112 GBV_ILN_4125 GBV_ILN_4126 GBV_ILN_4249 GBV_ILN_4305 GBV_ILN_4306 GBV_ILN_4307 GBV_ILN_4313 GBV_ILN_4322 GBV_ILN_4323 GBV_ILN_4324 GBV_ILN_4325 GBV_ILN_4335 GBV_ILN_4338 GBV_ILN_4367 GBV_ILN_4700 AR 9 2016 1 07 01 |
| spelling |
10.1186/s13068-015-0415-8 doi (DE-627)SPR030148545 (SPR)s13068-015-0415-8-e DE-627 ger DE-627 rakwb eng Luo, Hong verfasserin aut SorGSD: a sorghum genome SNP database 2016 Text txt rdacontent Computermedien c rdamedia Online-Ressource cr rdacarrier © Luo et al. 2016 Background Sorghum (Sorghum bicolor) is one of the most important cereal crops globally and a potential energy plant for biofuel production. In order to explore genetic gain for a range of important quantitative traits, such as drought and heat tolerance, grain yield, stem sugar accumulation, and biomass production, via the use of molecular breeding and genomic selection strategies, knowledge of the available genetic variation and the underlying sequence polymorphisms, is required. Results Based on the assembled and annotated genome sequences of Sorghum bicolor (v2.1) and the recently published sorghum re-sequencing data, ~62.9 M SNPs were identified among 48 sorghum accessions and included in a newly developed sorghum genome SNP database SorGSD (http://sorgsd.big.ac.cn). The diverse panel of 48 sorghum lines can be classified into four groups, improved varieties, landraces, wild and weedy sorghums, and a wild relative Sorghum propinquum. SorGSD has a web-based query interface to search or browse SNPs from individual accessions, or to compare SNPs among several lines. The query results can be visualized as text format in tables, or rendered as graphics in a genome browser. Users may find useful annotation from query results including type of SNPs such as synonymous or non-synonymous SNPs, start, stop of splice variants, chromosome locations, and links to the annotation on Phytozome (www.phytozome.net) sorghum genome database. In addition, general information related to sorghum research such as online sorghum resources and literature references can also be found on the website. All the SNP data and annotations can be freely download from the website. Conclusions SorGSD is a comprehensive web-portal providing a database of large-scale genome variation across all racial types of cultivated sorghum and wild relatives. It can serve as a bioinformatics platform for a range of genomics and molecular breeding activities for sorghum and for other $ C_{4} $ grasses. Sorghum (dpeaa)DE-He213 Bio-energy plant (dpeaa)DE-He213 Genome variation (dpeaa)DE-He213 SNPs (dpeaa)DE-He213 Database curation (dpeaa)DE-He213 Zhao, Wenming aut Wang, Yanqing aut Xia, Yan aut Wu, Xiaoyuan aut Zhang, Limin aut Tang, Bixia aut Zhu, Junwei aut Fang, Lu aut Du, Zhenglin aut Bekele, Wubishet A. aut Tai, Shuaishuai aut Jordan, David R. aut Godwin, Ian D. aut Snowdon, Rod J. aut Mace, Emma S. aut Luo, Jingchu aut Jing, Hai-Chun aut Enthalten in Biotechnology for biofuels London : BioMed Central, 2008 9(2016), 1 vom: 07. Jan. (DE-627)563167882 (DE-600)2421351-2 1754-6834 nnns volume:9 year:2016 number:1 day:07 month:01 https://dx.doi.org/10.1186/s13068-015-0415-8 kostenfrei Volltext GBV_USEFLAG_A SYSFLAG_A GBV_SPRINGER SSG-OLC-PHA GBV_ILN_11 GBV_ILN_20 GBV_ILN_22 GBV_ILN_23 GBV_ILN_24 GBV_ILN_31 GBV_ILN_39 GBV_ILN_40 GBV_ILN_60 GBV_ILN_62 GBV_ILN_63 GBV_ILN_65 GBV_ILN_69 GBV_ILN_70 GBV_ILN_73 GBV_ILN_74 GBV_ILN_95 GBV_ILN_105 GBV_ILN_110 GBV_ILN_151 GBV_ILN_161 GBV_ILN_170 GBV_ILN_206 GBV_ILN_213 GBV_ILN_230 GBV_ILN_285 GBV_ILN_293 GBV_ILN_602 GBV_ILN_2003 GBV_ILN_2005 GBV_ILN_2009 GBV_ILN_2011 GBV_ILN_2014 GBV_ILN_2027 GBV_ILN_2055 GBV_ILN_2108 GBV_ILN_2111 GBV_ILN_2119 GBV_ILN_4012 GBV_ILN_4037 GBV_ILN_4112 GBV_ILN_4125 GBV_ILN_4126 GBV_ILN_4249 GBV_ILN_4305 GBV_ILN_4306 GBV_ILN_4307 GBV_ILN_4313 GBV_ILN_4322 GBV_ILN_4323 GBV_ILN_4324 GBV_ILN_4325 GBV_ILN_4335 GBV_ILN_4338 GBV_ILN_4367 GBV_ILN_4700 AR 9 2016 1 07 01 |
| allfields_unstemmed |
10.1186/s13068-015-0415-8 doi (DE-627)SPR030148545 (SPR)s13068-015-0415-8-e DE-627 ger DE-627 rakwb eng Luo, Hong verfasserin aut SorGSD: a sorghum genome SNP database 2016 Text txt rdacontent Computermedien c rdamedia Online-Ressource cr rdacarrier © Luo et al. 2016 Background Sorghum (Sorghum bicolor) is one of the most important cereal crops globally and a potential energy plant for biofuel production. In order to explore genetic gain for a range of important quantitative traits, such as drought and heat tolerance, grain yield, stem sugar accumulation, and biomass production, via the use of molecular breeding and genomic selection strategies, knowledge of the available genetic variation and the underlying sequence polymorphisms, is required. Results Based on the assembled and annotated genome sequences of Sorghum bicolor (v2.1) and the recently published sorghum re-sequencing data, ~62.9 M SNPs were identified among 48 sorghum accessions and included in a newly developed sorghum genome SNP database SorGSD (http://sorgsd.big.ac.cn). The diverse panel of 48 sorghum lines can be classified into four groups, improved varieties, landraces, wild and weedy sorghums, and a wild relative Sorghum propinquum. SorGSD has a web-based query interface to search or browse SNPs from individual accessions, or to compare SNPs among several lines. The query results can be visualized as text format in tables, or rendered as graphics in a genome browser. Users may find useful annotation from query results including type of SNPs such as synonymous or non-synonymous SNPs, start, stop of splice variants, chromosome locations, and links to the annotation on Phytozome (www.phytozome.net) sorghum genome database. In addition, general information related to sorghum research such as online sorghum resources and literature references can also be found on the website. All the SNP data and annotations can be freely download from the website. Conclusions SorGSD is a comprehensive web-portal providing a database of large-scale genome variation across all racial types of cultivated sorghum and wild relatives. It can serve as a bioinformatics platform for a range of genomics and molecular breeding activities for sorghum and for other $ C_{4} $ grasses. Sorghum (dpeaa)DE-He213 Bio-energy plant (dpeaa)DE-He213 Genome variation (dpeaa)DE-He213 SNPs (dpeaa)DE-He213 Database curation (dpeaa)DE-He213 Zhao, Wenming aut Wang, Yanqing aut Xia, Yan aut Wu, Xiaoyuan aut Zhang, Limin aut Tang, Bixia aut Zhu, Junwei aut Fang, Lu aut Du, Zhenglin aut Bekele, Wubishet A. aut Tai, Shuaishuai aut Jordan, David R. aut Godwin, Ian D. aut Snowdon, Rod J. aut Mace, Emma S. aut Luo, Jingchu aut Jing, Hai-Chun aut Enthalten in Biotechnology for biofuels London : BioMed Central, 2008 9(2016), 1 vom: 07. Jan. (DE-627)563167882 (DE-600)2421351-2 1754-6834 nnns volume:9 year:2016 number:1 day:07 month:01 https://dx.doi.org/10.1186/s13068-015-0415-8 kostenfrei Volltext GBV_USEFLAG_A SYSFLAG_A GBV_SPRINGER SSG-OLC-PHA GBV_ILN_11 GBV_ILN_20 GBV_ILN_22 GBV_ILN_23 GBV_ILN_24 GBV_ILN_31 GBV_ILN_39 GBV_ILN_40 GBV_ILN_60 GBV_ILN_62 GBV_ILN_63 GBV_ILN_65 GBV_ILN_69 GBV_ILN_70 GBV_ILN_73 GBV_ILN_74 GBV_ILN_95 GBV_ILN_105 GBV_ILN_110 GBV_ILN_151 GBV_ILN_161 GBV_ILN_170 GBV_ILN_206 GBV_ILN_213 GBV_ILN_230 GBV_ILN_285 GBV_ILN_293 GBV_ILN_602 GBV_ILN_2003 GBV_ILN_2005 GBV_ILN_2009 GBV_ILN_2011 GBV_ILN_2014 GBV_ILN_2027 GBV_ILN_2055 GBV_ILN_2108 GBV_ILN_2111 GBV_ILN_2119 GBV_ILN_4012 GBV_ILN_4037 GBV_ILN_4112 GBV_ILN_4125 GBV_ILN_4126 GBV_ILN_4249 GBV_ILN_4305 GBV_ILN_4306 GBV_ILN_4307 GBV_ILN_4313 GBV_ILN_4322 GBV_ILN_4323 GBV_ILN_4324 GBV_ILN_4325 GBV_ILN_4335 GBV_ILN_4338 GBV_ILN_4367 GBV_ILN_4700 AR 9 2016 1 07 01 |
| allfieldsGer |
10.1186/s13068-015-0415-8 doi (DE-627)SPR030148545 (SPR)s13068-015-0415-8-e DE-627 ger DE-627 rakwb eng Luo, Hong verfasserin aut SorGSD: a sorghum genome SNP database 2016 Text txt rdacontent Computermedien c rdamedia Online-Ressource cr rdacarrier © Luo et al. 2016 Background Sorghum (Sorghum bicolor) is one of the most important cereal crops globally and a potential energy plant for biofuel production. In order to explore genetic gain for a range of important quantitative traits, such as drought and heat tolerance, grain yield, stem sugar accumulation, and biomass production, via the use of molecular breeding and genomic selection strategies, knowledge of the available genetic variation and the underlying sequence polymorphisms, is required. Results Based on the assembled and annotated genome sequences of Sorghum bicolor (v2.1) and the recently published sorghum re-sequencing data, ~62.9 M SNPs were identified among 48 sorghum accessions and included in a newly developed sorghum genome SNP database SorGSD (http://sorgsd.big.ac.cn). The diverse panel of 48 sorghum lines can be classified into four groups, improved varieties, landraces, wild and weedy sorghums, and a wild relative Sorghum propinquum. SorGSD has a web-based query interface to search or browse SNPs from individual accessions, or to compare SNPs among several lines. The query results can be visualized as text format in tables, or rendered as graphics in a genome browser. Users may find useful annotation from query results including type of SNPs such as synonymous or non-synonymous SNPs, start, stop of splice variants, chromosome locations, and links to the annotation on Phytozome (www.phytozome.net) sorghum genome database. In addition, general information related to sorghum research such as online sorghum resources and literature references can also be found on the website. All the SNP data and annotations can be freely download from the website. Conclusions SorGSD is a comprehensive web-portal providing a database of large-scale genome variation across all racial types of cultivated sorghum and wild relatives. It can serve as a bioinformatics platform for a range of genomics and molecular breeding activities for sorghum and for other $ C_{4} $ grasses. Sorghum (dpeaa)DE-He213 Bio-energy plant (dpeaa)DE-He213 Genome variation (dpeaa)DE-He213 SNPs (dpeaa)DE-He213 Database curation (dpeaa)DE-He213 Zhao, Wenming aut Wang, Yanqing aut Xia, Yan aut Wu, Xiaoyuan aut Zhang, Limin aut Tang, Bixia aut Zhu, Junwei aut Fang, Lu aut Du, Zhenglin aut Bekele, Wubishet A. aut Tai, Shuaishuai aut Jordan, David R. aut Godwin, Ian D. aut Snowdon, Rod J. aut Mace, Emma S. aut Luo, Jingchu aut Jing, Hai-Chun aut Enthalten in Biotechnology for biofuels London : BioMed Central, 2008 9(2016), 1 vom: 07. Jan. (DE-627)563167882 (DE-600)2421351-2 1754-6834 nnns volume:9 year:2016 number:1 day:07 month:01 https://dx.doi.org/10.1186/s13068-015-0415-8 kostenfrei Volltext GBV_USEFLAG_A SYSFLAG_A GBV_SPRINGER SSG-OLC-PHA GBV_ILN_11 GBV_ILN_20 GBV_ILN_22 GBV_ILN_23 GBV_ILN_24 GBV_ILN_31 GBV_ILN_39 GBV_ILN_40 GBV_ILN_60 GBV_ILN_62 GBV_ILN_63 GBV_ILN_65 GBV_ILN_69 GBV_ILN_70 GBV_ILN_73 GBV_ILN_74 GBV_ILN_95 GBV_ILN_105 GBV_ILN_110 GBV_ILN_151 GBV_ILN_161 GBV_ILN_170 GBV_ILN_206 GBV_ILN_213 GBV_ILN_230 GBV_ILN_285 GBV_ILN_293 GBV_ILN_602 GBV_ILN_2003 GBV_ILN_2005 GBV_ILN_2009 GBV_ILN_2011 GBV_ILN_2014 GBV_ILN_2027 GBV_ILN_2055 GBV_ILN_2108 GBV_ILN_2111 GBV_ILN_2119 GBV_ILN_4012 GBV_ILN_4037 GBV_ILN_4112 GBV_ILN_4125 GBV_ILN_4126 GBV_ILN_4249 GBV_ILN_4305 GBV_ILN_4306 GBV_ILN_4307 GBV_ILN_4313 GBV_ILN_4322 GBV_ILN_4323 GBV_ILN_4324 GBV_ILN_4325 GBV_ILN_4335 GBV_ILN_4338 GBV_ILN_4367 GBV_ILN_4700 AR 9 2016 1 07 01 |
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10.1186/s13068-015-0415-8 doi (DE-627)SPR030148545 (SPR)s13068-015-0415-8-e DE-627 ger DE-627 rakwb eng Luo, Hong verfasserin aut SorGSD: a sorghum genome SNP database 2016 Text txt rdacontent Computermedien c rdamedia Online-Ressource cr rdacarrier © Luo et al. 2016 Background Sorghum (Sorghum bicolor) is one of the most important cereal crops globally and a potential energy plant for biofuel production. In order to explore genetic gain for a range of important quantitative traits, such as drought and heat tolerance, grain yield, stem sugar accumulation, and biomass production, via the use of molecular breeding and genomic selection strategies, knowledge of the available genetic variation and the underlying sequence polymorphisms, is required. Results Based on the assembled and annotated genome sequences of Sorghum bicolor (v2.1) and the recently published sorghum re-sequencing data, ~62.9 M SNPs were identified among 48 sorghum accessions and included in a newly developed sorghum genome SNP database SorGSD (http://sorgsd.big.ac.cn). The diverse panel of 48 sorghum lines can be classified into four groups, improved varieties, landraces, wild and weedy sorghums, and a wild relative Sorghum propinquum. SorGSD has a web-based query interface to search or browse SNPs from individual accessions, or to compare SNPs among several lines. The query results can be visualized as text format in tables, or rendered as graphics in a genome browser. Users may find useful annotation from query results including type of SNPs such as synonymous or non-synonymous SNPs, start, stop of splice variants, chromosome locations, and links to the annotation on Phytozome (www.phytozome.net) sorghum genome database. In addition, general information related to sorghum research such as online sorghum resources and literature references can also be found on the website. All the SNP data and annotations can be freely download from the website. Conclusions SorGSD is a comprehensive web-portal providing a database of large-scale genome variation across all racial types of cultivated sorghum and wild relatives. It can serve as a bioinformatics platform for a range of genomics and molecular breeding activities for sorghum and for other $ C_{4} $ grasses. Sorghum (dpeaa)DE-He213 Bio-energy plant (dpeaa)DE-He213 Genome variation (dpeaa)DE-He213 SNPs (dpeaa)DE-He213 Database curation (dpeaa)DE-He213 Zhao, Wenming aut Wang, Yanqing aut Xia, Yan aut Wu, Xiaoyuan aut Zhang, Limin aut Tang, Bixia aut Zhu, Junwei aut Fang, Lu aut Du, Zhenglin aut Bekele, Wubishet A. aut Tai, Shuaishuai aut Jordan, David R. aut Godwin, Ian D. aut Snowdon, Rod J. aut Mace, Emma S. aut Luo, Jingchu aut Jing, Hai-Chun aut Enthalten in Biotechnology for biofuels London : BioMed Central, 2008 9(2016), 1 vom: 07. Jan. (DE-627)563167882 (DE-600)2421351-2 1754-6834 nnns volume:9 year:2016 number:1 day:07 month:01 https://dx.doi.org/10.1186/s13068-015-0415-8 kostenfrei Volltext GBV_USEFLAG_A SYSFLAG_A GBV_SPRINGER SSG-OLC-PHA GBV_ILN_11 GBV_ILN_20 GBV_ILN_22 GBV_ILN_23 GBV_ILN_24 GBV_ILN_31 GBV_ILN_39 GBV_ILN_40 GBV_ILN_60 GBV_ILN_62 GBV_ILN_63 GBV_ILN_65 GBV_ILN_69 GBV_ILN_70 GBV_ILN_73 GBV_ILN_74 GBV_ILN_95 GBV_ILN_105 GBV_ILN_110 GBV_ILN_151 GBV_ILN_161 GBV_ILN_170 GBV_ILN_206 GBV_ILN_213 GBV_ILN_230 GBV_ILN_285 GBV_ILN_293 GBV_ILN_602 GBV_ILN_2003 GBV_ILN_2005 GBV_ILN_2009 GBV_ILN_2011 GBV_ILN_2014 GBV_ILN_2027 GBV_ILN_2055 GBV_ILN_2108 GBV_ILN_2111 GBV_ILN_2119 GBV_ILN_4012 GBV_ILN_4037 GBV_ILN_4112 GBV_ILN_4125 GBV_ILN_4126 GBV_ILN_4249 GBV_ILN_4305 GBV_ILN_4306 GBV_ILN_4307 GBV_ILN_4313 GBV_ILN_4322 GBV_ILN_4323 GBV_ILN_4324 GBV_ILN_4325 GBV_ILN_4335 GBV_ILN_4338 GBV_ILN_4367 GBV_ILN_4700 AR 9 2016 1 07 01 |
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SorGSD: a sorghum genome SNP database |
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SorGSD: a sorghum genome SNP database |
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Luo, Hong |
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Biotechnology for biofuels |
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Biotechnology for biofuels |
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2016 |
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Luo, Hong Zhao, Wenming Wang, Yanqing Xia, Yan Wu, Xiaoyuan Zhang, Limin Tang, Bixia Zhu, Junwei Fang, Lu Du, Zhenglin Bekele, Wubishet A. Tai, Shuaishuai Jordan, David R. Godwin, Ian D. Snowdon, Rod J. Mace, Emma S. Luo, Jingchu Jing, Hai-Chun |
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Luo, Hong |
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10.1186/s13068-015-0415-8 |
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sorgsd: a sorghum genome snp database |
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SorGSD: a sorghum genome SNP database |
| abstract |
Background Sorghum (Sorghum bicolor) is one of the most important cereal crops globally and a potential energy plant for biofuel production. In order to explore genetic gain for a range of important quantitative traits, such as drought and heat tolerance, grain yield, stem sugar accumulation, and biomass production, via the use of molecular breeding and genomic selection strategies, knowledge of the available genetic variation and the underlying sequence polymorphisms, is required. Results Based on the assembled and annotated genome sequences of Sorghum bicolor (v2.1) and the recently published sorghum re-sequencing data, ~62.9 M SNPs were identified among 48 sorghum accessions and included in a newly developed sorghum genome SNP database SorGSD (http://sorgsd.big.ac.cn). The diverse panel of 48 sorghum lines can be classified into four groups, improved varieties, landraces, wild and weedy sorghums, and a wild relative Sorghum propinquum. SorGSD has a web-based query interface to search or browse SNPs from individual accessions, or to compare SNPs among several lines. The query results can be visualized as text format in tables, or rendered as graphics in a genome browser. Users may find useful annotation from query results including type of SNPs such as synonymous or non-synonymous SNPs, start, stop of splice variants, chromosome locations, and links to the annotation on Phytozome (www.phytozome.net) sorghum genome database. In addition, general information related to sorghum research such as online sorghum resources and literature references can also be found on the website. All the SNP data and annotations can be freely download from the website. Conclusions SorGSD is a comprehensive web-portal providing a database of large-scale genome variation across all racial types of cultivated sorghum and wild relatives. It can serve as a bioinformatics platform for a range of genomics and molecular breeding activities for sorghum and for other $ C_{4} $ grasses. © Luo et al. 2016 |
| abstractGer |
Background Sorghum (Sorghum bicolor) is one of the most important cereal crops globally and a potential energy plant for biofuel production. In order to explore genetic gain for a range of important quantitative traits, such as drought and heat tolerance, grain yield, stem sugar accumulation, and biomass production, via the use of molecular breeding and genomic selection strategies, knowledge of the available genetic variation and the underlying sequence polymorphisms, is required. Results Based on the assembled and annotated genome sequences of Sorghum bicolor (v2.1) and the recently published sorghum re-sequencing data, ~62.9 M SNPs were identified among 48 sorghum accessions and included in a newly developed sorghum genome SNP database SorGSD (http://sorgsd.big.ac.cn). The diverse panel of 48 sorghum lines can be classified into four groups, improved varieties, landraces, wild and weedy sorghums, and a wild relative Sorghum propinquum. SorGSD has a web-based query interface to search or browse SNPs from individual accessions, or to compare SNPs among several lines. The query results can be visualized as text format in tables, or rendered as graphics in a genome browser. Users may find useful annotation from query results including type of SNPs such as synonymous or non-synonymous SNPs, start, stop of splice variants, chromosome locations, and links to the annotation on Phytozome (www.phytozome.net) sorghum genome database. In addition, general information related to sorghum research such as online sorghum resources and literature references can also be found on the website. All the SNP data and annotations can be freely download from the website. Conclusions SorGSD is a comprehensive web-portal providing a database of large-scale genome variation across all racial types of cultivated sorghum and wild relatives. It can serve as a bioinformatics platform for a range of genomics and molecular breeding activities for sorghum and for other $ C_{4} $ grasses. © Luo et al. 2016 |
| abstract_unstemmed |
Background Sorghum (Sorghum bicolor) is one of the most important cereal crops globally and a potential energy plant for biofuel production. In order to explore genetic gain for a range of important quantitative traits, such as drought and heat tolerance, grain yield, stem sugar accumulation, and biomass production, via the use of molecular breeding and genomic selection strategies, knowledge of the available genetic variation and the underlying sequence polymorphisms, is required. Results Based on the assembled and annotated genome sequences of Sorghum bicolor (v2.1) and the recently published sorghum re-sequencing data, ~62.9 M SNPs were identified among 48 sorghum accessions and included in a newly developed sorghum genome SNP database SorGSD (http://sorgsd.big.ac.cn). The diverse panel of 48 sorghum lines can be classified into four groups, improved varieties, landraces, wild and weedy sorghums, and a wild relative Sorghum propinquum. SorGSD has a web-based query interface to search or browse SNPs from individual accessions, or to compare SNPs among several lines. The query results can be visualized as text format in tables, or rendered as graphics in a genome browser. Users may find useful annotation from query results including type of SNPs such as synonymous or non-synonymous SNPs, start, stop of splice variants, chromosome locations, and links to the annotation on Phytozome (www.phytozome.net) sorghum genome database. In addition, general information related to sorghum research such as online sorghum resources and literature references can also be found on the website. All the SNP data and annotations can be freely download from the website. Conclusions SorGSD is a comprehensive web-portal providing a database of large-scale genome variation across all racial types of cultivated sorghum and wild relatives. It can serve as a bioinformatics platform for a range of genomics and molecular breeding activities for sorghum and for other $ C_{4} $ grasses. © Luo et al. 2016 |
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Zhao, Wenming Wang, Yanqing Xia, Yan Wu, Xiaoyuan Zhang, Limin Tang, Bixia Zhu, Junwei Fang, Lu Du, Zhenglin Bekele, Wubishet A. Tai, Shuaishuai Jordan, David R. Godwin, Ian D. Snowdon, Rod J. Mace, Emma S. Luo, Jingchu Jing, Hai-Chun |
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