Whole-genome assembly and annotation of little yellow croaker (Larimichthys polyactis) provide insights into the evolution of hermaphroditism and gonochorism
Whole-genome assembly and annotation of little yellow croaker (Larimichthys polyactis) provide insights into the evolution of hermaphroditism and gonochorism
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小黄鱼（Larimichthys polyactis）的全基因组组装和注释为雌雄同体和雌雄异体的进化提供了见解
DOI：
10.22541/au.162790498.82247747/v1
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发表时间：
2022
影响因子：
7.7
通讯作者：
Lou Bao
中科院分区：
文献类型：
--
作者：
Xie Qing-Ping;Zhan Wei;Zhan Jian-zhi;Liu Feng;Niu Bao-Long;He Xue;Liu Meng;Liang Qi-Qi;Xie Yue;Xu Peng;Wang Xu;Lou Bao
雌雄异体和两性畸形的进化方向是一个有待解决的有趣的谜。小黄鱼（Larimichthys polyactis，L. polyactis）是一个吸引人的模型，用于研究雌雄同体的形成。另一方面，作为东亚最著名的经济鱼类，丽鱼的起源和进化关系也有待进一步研究。polyactis和Larimichthys crocea仍不清楚。本文报道了L. polyactis，大小约为706 Mb。（重叠群N50 = 1.21 Mb，支架N50 = 4.52 Mb）和25，233个蛋白质编码基因。系统基因组学分析表明，L. polyactis.与Larimichthys crocea的共同祖先有分歧。25.4百万年前我们的高质量的基因组组装使比较基因组分析成为可能，这揭示了两个物种之间的大量染色体内重排和易位，而没有发生主要的染色体分裂或融合事件。dmrt1.1基因被确定为百合性别决定基因的候选基因。多抗斯在转录组分析中，dmrt 1及其上游调控基因. rnf183的表达均具有性别二态性。Rnf183与它的两个旁系同源物rnf223和rnf225不同，它只在Larimichthys中存在，而在其他硬骨鱼类中不存在，这表明它起源于一个谱系特异的重复或在其他硬骨鱼类中丢失。系统发育分析表明，雄性百合的雌雄同体期为雌雄同体期。polyactis可以通过DMRT 1的序列进化来解释。解码L. polyactis基因组不仅提供了深入了解雌雄同体进化的遗传基础，而且还为提高鱼类水产养殖提供了有价值的信息。
The evolutionary direction of gonochorism and hermaphroditism is an.intriguing mystery to be solved. The special transient hermaphroditic.stage makes the little yellow croaker (Larimichthys polyactis, L..polyactis) an appealing model for studying the formation of.hermaphrodites. On the other hand, as the most famous commercial fish.species in East Asia, the origin and evolutionary relationship of L..polyactis and Larimichthys crocea remain unclear. Here, we report the.genome sequence of L. polyactis, with a size of ~706 Mb.(contig N50 = 1.21 Mb and scaffold N50 = 4.52 Mb) and 25,233.protein-coding genes. Phylogenomic analysis suggests that L. polyactis.diverged from the common ancestor of Larimichthys crocea.~25.4 million years ago. Our high-quality genome.assembly enabled comparative genomic analysis, which revealed a number.of within-chromosome rearrangements and translocations without major.chromosome fission or fusion events between the two species. The dmrt1.gene was identified as the candidate sex determination gene in L..polyactis. The expression of dmrt1 and its upstream regulatory gene.rnf183 were both sexually dimorphic in the transcriptome analysis..Rnf183, unlike its two paralogues rnf223 and rnf225, is only present in.Larimichthys but not in other teleost species, suggesting that it.originated from a lineage-specific duplication or was lost in other.teleosts. Phylogenetic analysis shows that the hermaphrodite stage in.male L. polyactis may be explained by the sequence evolution of dmrt1..Decoding the L. polyactis genome not only provides insight into the.genetic underpinnings of hermaphrodite evolution but also provides.valuable information for enhancing fish aquaculture.