title: A genomic survey on the immune differences amongSinocyclocheilusfishes.
abstract: In our previous work, we reported comparative genomics studies on 3Sinocyclocheilusfishes, including the surface-dwellingS. graham(Sg), the semi-cave-dewllingS. rhinocerous(Sr) and the cave-restrictedS. anshuiensis(Sa). Here, we performed a genomic survey on the immunity differences among the 3 fishes by combination of the genome and transcriptome data. Our results demonstrate that immune-related genetic pathways in Sa and Sr present more similarities than Sg. The innate immune activity in Sa seems to be higher than Sg and Sr, while Sr owns more copy numbers of MHC-related genes (related with the acquired immune system) than Sg and Sa. These differential immune activities in the 3Sinocyclocheilusspecies may be due to their differential habitats. Generally speaking, most immunity genes transcribe the lowest levels in Sa when compared with Sg and Sr, which may be associate with a less various microbial environment in the cave-restricted habitat. However, Sr has more members of MHC-related genes than those in Sg and Sa, suggesting a great contribution from the semi-cave-dwelling condition.
authors.affiliation: Shenzhen Key Lab of Marine Genomics, Guangdong Provincial Key Lab of Molecular Breeding in Marine Economic Animals, BGI Shenzhen Academy of Marine Sciences, BGI Fisheries, BGI , Shenzhen, China.
authors.forename: Ying
authors.initials: Y
authors.lastname: Qiu
authors.affiliation: State Key Laboratory of Genetic Resources and Evolution, Kunming Institute of Zoology, Chinese Academy of Sciences , Kunming, China.
authors.forename: Junxing
authors.initials: J
authors.lastname: Yang
authors.affiliation: State Key Laboratory of Genetic Resources and Evolution, Kunming Institute of Zoology, Chinese Academy of Sciences , Kunming, China.
authors.forename: Wansheng
authors.initials: W
authors.lastname: Jiang
authors.affiliation: BGI-Shenzhen, BGI , Shenzhen, China.
authors.forename: Xiaoli
authors.initials: X
authors.lastname: Chen
authors.affiliation: Shenzhen Key Lab of Marine Genomics, Guangdong Provincial Key Lab of Molecular Breeding in Marine Economic Animals, BGI Shenzhen Academy of Marine Sciences, BGI Fisheries, BGI, Shenzhen, China; BGI Research Center for Aquatic Genomics, Chinese Academy of Fishery Sciences, Shenzhen, China.
authors.forename: Chao
authors.initials: C
authors.lastname: Bian
authors.affiliation: Shenzhen Key Lab of Marine Genomics, Guangdong Provincial Key Lab of Molecular Breeding in Marine Economic Animals, BGI Shenzhen Academy of Marine Sciences, BGI Fisheries, BGI, Shenzhen, China; BGI Research Center for Aquatic Genomics, Chinese Academy of Fishery Sciences, Shenzhen, China; Laboratory of Aquatic Genomics, College of Ecology and Evolution, School of Life Sciences, Sun Yat-Sen University, Guangzhou, China.
authors.forename: Qiong
authors.initials: Q
authors.lastname: Shi
keywords: Sinocyclocheilus fishes; acquired immune; adaptation; immunity; innate immune