A chromosome‐scale genome assembly of the Mongolian oak (Quercus mongolica). (13th April 2022)

• Record Type: Journal Article
• Authors: Ai, Wanfeng; Liu, Yanqun; Mei, Mei; Zhang, Xiaolin; Tan, Enguang; Liu, Hanzhang; Han, Xiaoyi; Zhan, Hao; Lu, Xiujun
• Is Part Of: Molecular ecology resources. Volume 22:Number 6(2022)
• Page Start: 2396
• Page End: 2410
• Publication Date: 2022-04-13
• Subjects: Asian white oak -- chromosome‐scale genome assembly -- cuticular wax biosynthesis‐related gene -- disease resistance gene -- genome evolution -- Quercus mongolica; Molecular ecology -- Periodicals; 572.8
• DOI: 10.1111/1755-0998.13616
• Languages: English
• ISSNs: 1755-098X

Abstract

Abstract: Mongolian oak ( Quercus mongolica Fisch.) is an ecologically and economically important white oak species native to and widespread in the temperate zone of East Asia. Here, we present a chromosome‐scale reference genome assembly of Q. mongolica, a representative white oak species, by combining Illumina and PacBio data with Hi‐C mapping technologies that is the first reference genome created for an Asian oak. Our results showed that the PacBio draft genome size was 809.84 Mb, with a BUSCO complete gene percentage of 92.71%. Hi‐C scaffolding anchored 774.59 Mb contigs (95.65% of draft assembly) onto 12 pseudochromosomes. The contig N50 and scaffold N50 were 2.64 and 66.74 Mb, respectively. Of the 36, 553 protein‐coding genes predicted in the study, approximately 95% had functional annotations in public databases. A total of 435.34 Mb (53.75% of the genome) of repetitive sequences were predicted in the assembled genome. Genome evolution analysis showed that Q. mongolica is closely related to Q. robur from Europe, and they shared a common ancestor ~11.8 million years ago (Ma). Gene family evolution analysis of Q. mongolica revealed that the nucleotide‐binding site (NBS)‐encoding gene family related to disease resistance was significantly contracted, whereas the ECERIFERUM 1 ( CER1 ) homologous genes related to cuticular wax biosynthesis was significantly expanded. This pioneering Asian oak genome resource represents an important supplement to the oak genomics community and will improve our understanding of Asian white oak biology and evolution.