TY - JOUR
T1 - Horseshoe crab genomes reveal the evolution of genes and microRNAs after three rounds of whole genome duplication
AU - Nong, Wenyan
AU - Qu, Zhe
AU - Li, Yiqian
AU - Barton-Owen, Tom
AU - Wong, Annette Y. P.
AU - Yip, Ho Yin
AU - Lee, Hoi Ting
AU - Narayana, Satya
AU - Baril, Tobias
AU - Swale, Thomas
AU - Cao, Jianquan
AU - Chan, Ting Fung
AU - Kwan, Hoi Shan
AU - Ngai, Sai Ming
AU - Panagiotou, Gianni
AU - Qian, Pei-Yuan
AU - Qiu, Jian-Wen
AU - Yip, Kevin Y.
AU - Ismail, Noraznawati
AU - Pati, Siddhartha
AU - John, Akbar
AU - Tobe, Stephen S.
AU - Bendena, William G.
AU - Cheung, Siu Gin
AU - Hayward, Alexander
AU - Hui, Jerome H. L.
PY - 2021
Y1 - 2021
N2 - Whole genome duplication (WGD) has occurred in relatively few sexually reproducing invertebrates. Consequently, the WGD that occurred in the common ancestor of horseshoe crabs ~135 million years ago provides a rare opportunity to decipher the evolutionary consequences of a duplicated invertebrate genome. Here, we present a high-quality genome assembly for the mangrove horseshoe crab Carcinoscorpius rotundicauda (1.7 Gb, N50 = 90.2 Mb, with 89.8% sequences anchored to 16 pseudomolecules, 2n = 32), and a resequenced genome of the tri-spine horseshoe crab Tachypleus tridentatus (1.7 Gb, N50 = 109.7 Mb). Analyses of gene families, microRNAs, and synteny show that horseshoe crabs have undergone three rounds (3R) of WGD. Comparison of C. rotundicauda and T. tridentatus genomes from populations from several geographic locations further elucidates the diverse fates of both coding and noncoding genes. Together, the present study represents a cornerstone for improving our understanding of invertebrate WGD events on the evolutionary fates of genes and microRNAs, at both the individual and population level. We also provide improved genomic resources for horseshoe crabs, of applied value for breeding programs and conservation of this fascinating and unusual invertebrate lineage.
AB - Whole genome duplication (WGD) has occurred in relatively few sexually reproducing invertebrates. Consequently, the WGD that occurred in the common ancestor of horseshoe crabs ~135 million years ago provides a rare opportunity to decipher the evolutionary consequences of a duplicated invertebrate genome. Here, we present a high-quality genome assembly for the mangrove horseshoe crab Carcinoscorpius rotundicauda (1.7 Gb, N50 = 90.2 Mb, with 89.8% sequences anchored to 16 pseudomolecules, 2n = 32), and a resequenced genome of the tri-spine horseshoe crab Tachypleus tridentatus (1.7 Gb, N50 = 109.7 Mb). Analyses of gene families, microRNAs, and synteny show that horseshoe crabs have undergone three rounds (3R) of WGD. Comparison of C. rotundicauda and T. tridentatus genomes from populations from several geographic locations further elucidates the diverse fates of both coding and noncoding genes. Together, the present study represents a cornerstone for improving our understanding of invertebrate WGD events on the evolutionary fates of genes and microRNAs, at both the individual and population level. We also provide improved genomic resources for horseshoe crabs, of applied value for breeding programs and conservation of this fascinating and unusual invertebrate lineage.
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U2 - 10.1038/s42003-020-01637-2
DO - 10.1038/s42003-020-01637-2
M3 - RGC 21 - Publication in refereed journal
C2 - 33469163
SN - 2399-3642
VL - 4
JO - Communications Biology
JF - Communications Biology
M1 - 83
ER -