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Developing a community-based genetic nomenclature for anole lizards.

Authors :
Kusumi K
Kulathinal RJ
Abzhanov A
Boissinot S
Crawford NG
Faircloth BC
Glenn TC
Janes DE
Losos JB
Menke DB
Poe S
Sanger TJ
Schneider CJ
Stapley J
Wade J
Wilson-Rawls J
Source :
BMC genomics [BMC Genomics] 2011 Nov 11; Vol. 12, pp. 554. Date of Electronic Publication: 2011 Nov 11.
Publication Year :
2011

Abstract

Background: Comparative studies of amniotes have been hindered by a dearth of reptilian molecular sequences. With the genomic assembly of the green anole, Anolis carolinensis 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 Anolis, 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 Anolis gene nomenclature alongside associated vocabularies and other useful metrics.<br />Results: Here we report the formation of the Anolis 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 Anolis and other reptiles, furnish abbreviations to facilitate comparative studies among the Anolis species and related iguanid squamates, and classify the geographical origins of Anolis subpopulations.<br />Conclusions: This report has been generated in close consultation with members of the Anolis 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 lizardbase. 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.

Details

Language :
English
ISSN :
1471-2164
Volume :
12
Database :
MEDLINE
Journal :
BMC genomics
Publication Type :
Academic Journal
Accession number :
22077994
Full Text :
https://doi.org/10.1186/1471-2164-12-554