Genome assembly of redclaw crayfish (Cherax quadricarinatus) provides insights into its immune adaptation and hypoxia tolerance
文献类型： 外文期刊
作者： Liu, Ziwei 1 ; Zheng, Jianbo 2 ; Li, Haoyang 3 ; Fang, Ke 1 ; Wang, Sheng 3 ; He, Jian 1 ; Zhou, Dandan 1 ; Weng, Shaoping 3 ; Chi, Meili 2 ; Gu, Zhimin 2 ; He, Jianguo 1 ; Li, Fei 2 ; Wang, Muhua 1 ;
作者机构： 1.Sun Yat Sen Univ, Sch Marine Sci, State Key Lab Biocontrol, Zhuhai 519000, Peoples R China
2.Zhejiang Inst Freshwater Fisheries, Key Lab Genet & Breeding, Huzhou 313001, Peoples R China
3.Sun Yat Sen Univ, Sch Life Sci, China ASEAN Belt & Rd Joint Lab Mariculture Techno, Guangdong Prov Key Lab Aquat Econ Anim, Guangzhou 510275, Peoples R China
4.Southern Marine Sci & Engn Guangdong Lab Zhuhai, Zhuhai 519000, Peoples R China
5.Zhejiang Acad Agr Sci, Hangzhou 310021, Peoples R China
关键词： Cherax quadricarinatus; Adaptation; Immune-related gene family; Hypoxia; KDM5A
期刊名称：BMC GENOMICS （ 影响因子：3.5； 五年影响因子：4.1 ）
ISSN： 1471-2164
年卷期： 2024 年 25 卷 1 期
页码：
收录情况： SCI
摘要： Background The introduction of non-native species is a primary driver of biodiversity loss in freshwater ecosystems. The redclaw crayfish (Cherax quadricarinatus) is a freshwater species that exhibits tolerance to hypoxic stresses, fluctuating temperatures, high ammonia concentration. These hardy physiological characteristics make C. quadricarinatus a popular aquaculture species and a potential invasive species that can negatively impact tropical and subtropical ecosystems. Investigating the genomic basis of environmental tolerances and immune adaptation in C. quadricarinatus will facilitate the development of management strategies of this potential invasive species. Results We constructed a chromosome-level genome of C. quadricarinatus by integrating Nanopore and PacBio techniques. Comparative genomic analysis suggested that transposable elements and tandem repeats drove genome size evolution in decapod crustaceans. The expansion of nine immune-related gene families contributed to the disease resistance of C. quadricarinatus. Three hypoxia-related genes (KDM3A, KDM5A, HMOX2) were identified as being subjected to positive selection in C. quadricarinatus. Additionally, in vivo analysis revealed that upregulating KDM5A was crucial for hypoxic response in C. quadricarinatus. Knockdown of KDM5A impaired hypoxia tolerance in this species. Conclusions Our results provide the genomic basis for hypoxic tolerance and immune adaptation in C. quadricarinatus, facilitating the management of this potential invasive species. Additionally, in vivo analysis in C. quadricarinatus suggests that the role of KDM5A in the hypoxic response of animals is complex.
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