Abstract
Hog deer (Axis porcinus) is a small deer species in family Cervidae and has been undergoing a serious and global decline during the past decades. Chengdu Zoo currently holds a captive population of hog deer with sufficient genetic diversity in China. We sequenced and de novo assembled its genome sequence in the present study. A total of six different insert-size libraries were sequenced and generated 395 Gb of clean data in total. With aid of the linked reads of 10X Genomics, genome sequence was assembled to 2.72 Gb in length (contig N50, 66.04 Kb; scaffold N50, 20.55 Mb), in which 94.5% of expected genes were detected. We comprehensively annotated 22,473 protein-coding genes, 37,019 tRNAs, and 1,058 Mb repeated sequences. The newly generated reference genome is expected to significantly contribute to comparative analysis of genome biology and evolution within family Cervidae.
Highlights
Background & SummaryThere are 56 cervid species in the Red List of International Union for Conservation of Nature[1] and form the second most diverse group among terrestrial artiodactyls[2]
The draft genomes have been recently published for red deer (Cervus elaphus)[6] and reindeer (Rangifer tarandus)[7], a large number of cervid species remain to be sequenced
Chengdu Zoo of Sichuan holds the largest captive population of hog deer in China, for which the genetic diversity has been successfully revealed by the genome-wide SNPs in our lab[11]
Summary
Background & SummaryThere are 56 cervid species (family Cervidae) in the Red List of International Union for Conservation of Nature[1] and form the second most diverse group among terrestrial artiodactyls[2]. We further sequenced and de novo assembled the genome of hog deer, which is expected to contribute to the comparative analysis of genome biology among cervid species. These processes yielded a draft genome of hog deer with a total length of 2.72 Gb, contig N50 of 66.04 Kb and scaffold N50 of 20.55 Mb (Table 2).
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