Developing a community-based genetic nomenclature for anole lizards
<p>Abstract</p> <p>Background</p> <p>Comparative studies of amniotes have been hindered by a dearth of reptilian molecular sequences. With the genomic assembly of the green anole, <it>Anolis carolinensis </it>available, non-avian reptilian genes can now be c...
| Main Authors: | , , , , , , , , , , , , , , , |
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| Format: | Article |
| Language: | English |
| Published: |
BMC
2011-11-01
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| Series: | BMC Genomics |
| Online Access: | http://www.biomedcentral.com/1471-2164/12/554 |
| _version_ | 1828412920215633920 |
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| author | Kusumi Kenro Kulathinal Rob J Abzhanov Arhat Boissinot Stephane Crawford Nicholas G Faircloth Brant C Glenn Travis C Janes Daniel E Losos Jonathan B Menke Douglas B Poe Steven Sanger Thomas J Schneider Christopher J Stapley Jessica Wade Juli Wilson-Rawls Jeanne |
| author_facet | Kusumi Kenro Kulathinal Rob J Abzhanov Arhat Boissinot Stephane Crawford Nicholas G Faircloth Brant C Glenn Travis C Janes Daniel E Losos Jonathan B Menke Douglas B Poe Steven Sanger Thomas J Schneider Christopher J Stapley Jessica Wade Juli Wilson-Rawls Jeanne |
| author_sort | Kusumi Kenro |
| collection | DOAJ |
| description | <p>Abstract</p> <p>Background</p> <p>Comparative studies of amniotes have been hindered by a dearth of reptilian molecular sequences. With the genomic assembly of the green anole, <it>Anolis carolinensis </it>available, non-avian reptilian genes can now be compared to mammalian, avian, and amphibian homologs. Furthermore, with more than 350 extant species in the genus <it>Anolis</it>, anoles are an unparalleled example of tetrapod genetic diversity and divergence. As an important ecological, genetic and now genomic reference, it is imperative to develop a standardized <it>Anolis </it>gene nomenclature alongside associated vocabularies and other useful metrics.</p> <p>Results</p> <p>Here we report the formation of the <it>Anolis </it>Gene Nomenclature Committee (AGNC) and propose a standardized evolutionary characterization code that will help researchers to define gene orthology and paralogy with tetrapod homologs, provide a system for naming novel genes in <it>Anolis </it>and other reptiles, furnish abbreviations to facilitate comparative studies among the <it>Anolis </it>species and related iguanid squamates, and classify the geographical origins of <it>Anolis </it>subpopulations.</p> <p>Conclusions</p> <p>This report has been generated in close consultation with members of the <it>Anolis </it>and genomic research communities, and using public database resources including NCBI and Ensembl. Updates will continue to be regularly posted to new research community websites such as <it>lizardbase</it>. We anticipate that this standardized gene nomenclature will facilitate the accessibility of reptilian sequences for comparative studies among tetrapods and will further serve as a template for other communities in their sequencing and annotation initiatives.</p> |
| first_indexed | 2024-12-10T12:58:00Z |
| format | Article |
| id | doaj.art-155c4ba1cc6344a88b307f4f57aa33ee |
| institution | Directory Open Access Journal |
| issn | 1471-2164 |
| language | English |
| last_indexed | 2024-12-10T12:58:00Z |
| publishDate | 2011-11-01 |
| publisher | BMC |
| record_format | Article |
| series | BMC Genomics |
| spelling | doaj.art-155c4ba1cc6344a88b307f4f57aa33ee2022-12-22T01:48:02ZengBMCBMC Genomics1471-21642011-11-0112155410.1186/1471-2164-12-554Developing a community-based genetic nomenclature for anole lizardsKusumi KenroKulathinal Rob JAbzhanov ArhatBoissinot StephaneCrawford Nicholas GFaircloth Brant CGlenn Travis CJanes Daniel ELosos Jonathan BMenke Douglas BPoe StevenSanger Thomas JSchneider Christopher JStapley JessicaWade JuliWilson-Rawls Jeanne<p>Abstract</p> <p>Background</p> <p>Comparative studies of amniotes have been hindered by a dearth of reptilian molecular sequences. With the genomic assembly of the green anole, <it>Anolis carolinensis </it>available, non-avian reptilian genes can now be compared to mammalian, avian, and amphibian homologs. Furthermore, with more than 350 extant species in the genus <it>Anolis</it>, anoles are an unparalleled example of tetrapod genetic diversity and divergence. As an important ecological, genetic and now genomic reference, it is imperative to develop a standardized <it>Anolis </it>gene nomenclature alongside associated vocabularies and other useful metrics.</p> <p>Results</p> <p>Here we report the formation of the <it>Anolis </it>Gene Nomenclature Committee (AGNC) and propose a standardized evolutionary characterization code that will help researchers to define gene orthology and paralogy with tetrapod homologs, provide a system for naming novel genes in <it>Anolis </it>and other reptiles, furnish abbreviations to facilitate comparative studies among the <it>Anolis </it>species and related iguanid squamates, and classify the geographical origins of <it>Anolis </it>subpopulations.</p> <p>Conclusions</p> <p>This report has been generated in close consultation with members of the <it>Anolis </it>and genomic research communities, and using public database resources including NCBI and Ensembl. Updates will continue to be regularly posted to new research community websites such as <it>lizardbase</it>. We anticipate that this standardized gene nomenclature will facilitate the accessibility of reptilian sequences for comparative studies among tetrapods and will further serve as a template for other communities in their sequencing and annotation initiatives.</p>http://www.biomedcentral.com/1471-2164/12/554 |
| spellingShingle | Kusumi Kenro Kulathinal Rob J Abzhanov Arhat Boissinot Stephane Crawford Nicholas G Faircloth Brant C Glenn Travis C Janes Daniel E Losos Jonathan B Menke Douglas B Poe Steven Sanger Thomas J Schneider Christopher J Stapley Jessica Wade Juli Wilson-Rawls Jeanne Developing a community-based genetic nomenclature for anole lizards BMC Genomics |
| title | Developing a community-based genetic nomenclature for anole lizards |
| title_full | Developing a community-based genetic nomenclature for anole lizards |
| title_fullStr | Developing a community-based genetic nomenclature for anole lizards |
| title_full_unstemmed | Developing a community-based genetic nomenclature for anole lizards |
| title_short | Developing a community-based genetic nomenclature for anole lizards |
| title_sort | developing a community based genetic nomenclature for anole lizards |
| url | http://www.biomedcentral.com/1471-2164/12/554 |
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