A chromosome-level genome assembly for the Rock Ptarmigan (Lagopus muta)

被引：1

作者：

Squires, Theodore E. ^{[1
,2
]}

Rodin-Morch, Patrik ^{[1
,2
]}

Formenti, Giulio ^{[3
]}

Tracey, Alan ^{[4
]}

Abueg, Linelle ^{[3
]}

Brajuka, Nadolina ^{[3
]}

Jarvis, Erich ^{[3
]}

Halapi, Eva C. ^{[1
]}

Melsted, Pall ^{[5
,6
]}

Hoglund, Jacob ^{[2
]}

Magnusson, Kristinn Petur ^{[1
,6
,7
]}

机构：

[1] Univ Akureyri, Fac Nat Resource Sci, Borgir vio Noroursloo, IS-600 Akureyri, Iceland

[2] Uppsala Univ, Fac Anim Ecol, Ctr Evolut & Genom, Norbyvagen 18D, S-75236 Uppsala, Sweden

[3] Rockefeller Univ, Ctr Genom & Syst Biol, 1230 York Ave, New York, NY 10065 USA

[4] Wellcome Sanger Inst, Wellcome Genome Campus, Hinxton CB10 1SA, Cambs, England

[5] Univ Iceland, Dept Comp Sci, Saemundargata 2, IS-102 Reykjavik, Iceland

[6] Univ Iceland, Biomed Ctr, Med Pk,Vatnsmyrarvegur 16, IS-101 Reykjavik, Iceland

[7] Iceland Inst Nat Hist, Borgir vio Noroursloo, IS-600 Akureyri, Iceland

来源：

G3-GENES GENOMES GENETICS | 2023年 / 13卷 / 07期

关键词：

Rock Ptarmigan; Lagopus muta; reference genome; PacBio Hifi; evolutionary biology; COMPLETE MITOCHONDRIAL GENOME; SVALBARD PTARMIGAN; GROUSE; BIOGEOGRAPHY; GYRFALCON; COVERAGE; UPDATE;

D O I：

10.1093/g3journal/jkad099

中图分类号：

Q3 [遗传学];

学科分类号：

071007 ; 090102 ;

摘要：

The Rock Ptarmigan (Lagopus muta) is a cold-adapted, largely sedentary, game bird with a Holarctic distribution. The species represents an important example of an organism likely to be affected by ongoing climatic shifts across a disparate range. We provide here a highquality reference genome and mitogenome for the Rock Ptarmigan assembled from PacBio HiFi and Hi-C sequencing of a female bird from Iceland. The total size of the genome is 1.03 Gb with a scaffold N50 of 71.23 Mb and a contig N50 of 17.91 Mb. The final scaffolds represent all 40 predicted chromosomes, and the mitochondria with a BUSCO score of 98.6%. Gene annotation resulted in 16,078 protein-coding genes out of a total 19,831 predicted (81.08% excluding pseudogenes). The genome included 21.07% repeat sequences, and the average length of genes, exons, and introns were 33605, 394, and 4265 bp, respectively. The availability of a new reference-quality genome will contribute to understanding the Rock Ptarmigan's unique evolutionary history, vulnerability to climate change, and demographic trajectories around the globe while serving as a benchmark for species in the family Phasianidae (order Galliformes).

引用

页数：8