Genomic resources for the endangered Hawaiian honeycreepers

Author:

Callicrate, Taylor, Dikow, Rebecca, Thomas, James W, Mullikin, James C, Jarvis, Erich D, Fleischer, Robert C.

Title:

Genomic resources for the endangered Hawaiian honeycreepers

Periodical:

BMC Genomics

Year:

2014

Volume:

15

Subject:

Hawaii Amakihi Hemignathus virens Genetics Endangered species birds Hawaiian honeycreepers Palila Iiwi Apapane

Summary:

We assembled the genome sequence of a Hawaii amakihi (Hemignathus virens),and identified ~3.9 million single nucleotide polymorphisms (SNPs) in the genome. Using the amakihi genome as a reference, we also identified ~156,000 SNPs in RAD tag (restriction site associated DNA) sequencing of five honeycreeper species (palila [Loxioides bailleui], Nihoa finch [Telespiza ultima], iiwi [Vestiaria coccinea], apapane [Himatione sanguinea], and amakihi). SNPs are distributed throughout the amakihi genome, and the individual sequenced shows several large regions of low heterozygosity on chromosomes 1, 5, 6, 8 and 11. SNPs from RAD tag sequencing were also found throughout the genome but were found to be more densely located on microchromosomes, apparently a result of differential distribution of the particular site recognized by restriction enzyme BseXI.

Label:

Birds - General

URL:

https://bmcgenomics.biomedcentral.com/articles/10.1186/1471-2164-15-1098

Date:

December 12, 2014

Collection:

Periodicals