Schizothoracinae Fishes Research Articles

Swimming ability of Schizothoracinae fishes in Yarlung Zangbo River of China.

The Yarlung Zangbo River is a river with abundant hydropower resources but fragile biodiversity in China. As an important benchmark for both research and ecological management, there is still a lack of knowledge about the swimming ability of fishes in the Yarlung Zangbo River. The induced flow velocity (Uind), critical swimming speed (Ucrit), and burst swimming speed (Uburst) of five Schizothoracinae species were tested in this study. Relative swimming ability related to body length and body shape was calculated. The results indicated that the average absolute swimming speeds (Uind-a, Ucrit-a, and Uburst-a) of all the experimental fish were 10.20 ± 0.01, 57.58 ± 3.28, and 69.54 ± 2.94 cm/s, respectively, and the corresponding relative Uind, Ucrit, and Uburst related to body length (Uind-l, Ucrit-l, Uburst-l) were 1.15 ± 0.07, 5.04 ± 0.26, and 7.23 ± 0.28 BL/s, respectively. Moreover, relative Uind, Ucrit, and Uburst related to body shape (Uind-s, Ucrit-s, and Uburst-s) were 0.80 ± 0.13, 2.49 ± 0.51, and 4.32 ± 0.57 cm-2/s, respectively. No significantly differences in relative swimming speeds existed among five species. Only Oxygymnocypris stewartii was significantly weaker in Uburst-s than Schizothorax o'connori. The body shape showed a stronger relationship with swimming speed than the body length did. Schizothoracinae fish in the Yarlung Zangbo River basin are less sensitive to the water flow and performed weaker Ucrit and Uburst compared to those in the Yangtze River basin, indicating that Schizothoracinae fish in the Yarlung Zangbo River may be more susceptible to threats from environmental changes. The paper enriched the research on the swimming ability of Schizothoracinae fishes and provided efficient data for the fish conservation in the Yarlung Zangbo River.

A global dataset on species occurrences and functional traits of Schizothoracinae fish

The Schizothoracinae fish are a natural group of cyprinids widely distributed in rivers and lakes in the Qinghai-Tibetan Plateau (QTP) and adjacent regions. These fish parallelly evolved with the QTP uplift and are thus important for uncovering geological history, the paleoclimatic environment, and the mechanisms of functional adaptation to environmental change. However, a dataset including species occurrences and functional traits, which are essential for resolving the above issues and guiding relevant conservation, remains unavailable. To fill this gap, we systematically compiled a comprehensive dataset on species occurrences and functional traits of Schizothoracinae fish from our long-term field samplings and various sources (e.g., publications and online databases). The dataset includes 7,333 occurrence records and 3,204 records of 32 functional traits covering all the genera and species of Schizothoracinae fish (i.e., 12 genera and 125 species or subspecies). Sampling records spanned over 180 years. This dataset will serve as a valuable resource for future research on the evolution, historical biogeography, responses to environmental change, and conservation of the Schizothoracinae fish.

Flow and thermal regimes altered by a dam caused failure of fish recruitment in the upper Mekong River

Abstract Riverine fishes have been increasingly threatened by the global proliferation of both small dams and large hydropower projects to meet the soaring water, energy and food demands from growing human populations and urbanisation. However, empirical evidence of the direct effects on a specific species before and after dam construction and operation is rare. Causes of population decline vary among species and, although little known, they are of great importance for successful environmental flow regulation. We monitored the hydroenvironment and population dynamics of a Schizothoracinae fish (Schizothorax lissolabiatus) for 9 years before and after dam (i.e., Dahuaqiao) construction in the upper Mekong River to understand fish response processes and the underlying mechanisms. Optimal hydroenvironmental conditions for key reproduction stages (e.g., pre‐spawning, hatching and post‐hatching) were reconstructed using daily increment analysis of larval otoliths and hydroenvironmental data. The flow regime was substantially disrupted by the dam, and water temperature was only slightly changed. The disappearance of young of the year from downstream after dam operation indicates that the changed hydroenvironment caused recruitment failure in S. lissolabiatus. By matching optimal hydroenvironmental conditions for S. lissolabiatus reproduction with the monitored hydroenvironmental data series before and after dam operation, we found that changes in thermal regime alone caused narrowing of the reproduction window by an average of 41%, whereas flow‐regime change alone narrowed it by 96% and it was narrowed by 98% for thermal and flow changes combined. This study shows that the altered flow regime, but not the thermal regime, was the primary driver of the recruitment failure of S. lissolabiatus. The findings highlight the importance of prioritising flow‐regime management to improve recruitment success for S. lissolabiatus and to favour the persistence of other imperilled Schizothoracinae fishes and native species in dammed rivers.

Trophic Niche Overlap between Invasive and Indigenous Fish in a Northwest Reservoir of China

The Kizil reservoir in the Tarim River basin is an important habitat for the native Schizothoracinae fish (including Aspiorhynchus laticeps, Schizothorax biddulphi, Schizothorax eurystomus, Schizothorax intermedius and Schizothorax barbatus). Unfortunately, these species are threatened by many exotic fish, such as Ctenopharyngodon idellus, Silurus asotus. As an isolated habitat, the Kizil reservoir is an ideal area for studying biological invasions. However, the impact of invasive species on indigenous species in this reservoir remains unknown. In this study, the niche width and niche overlap between invasive and indigenous species in Kizil reservoir were studied based on stable isotope analysis. The results showed that niche width of two invasive species, S. asotus and C. idellus, was larger than that of native fish species, which confirmed the hypotheses that successful invaders have larger niche width. The niche overlap analysis showed that the two invasive species had high niche overlap with native fish species, which meant that there might be intensive interspecific competitions between them. The invasion of non-native species could be the main reason for the decrease of native species in the Kizil reservoir.

Hb adaptation to hypoxia in high-altitude fishes: Fresh evidence from schizothoracinae fishes in the Qinghai-Tibetan Plateau

Uncovering the genetic basis of hypoxic adaptation is one of the most active research areas in evolutionary biology. Among air-breathing vertebrates, modifications of hemoglobin (Hb) play a pivotal role in mediating an adaptive response to high-altitude hypoxia. However, the relative contributions in water-breathing organisms are still unclear. Here, we tested the Hb concentration of fish at different altitudes. All species showed species-specific Hb concentration, which has a non-positive correlation with altitude. Moreover, we investigated the expression of Hb genes by the RNA-seq and quantitative real-time PCR (qRT-PCR), and Hb composition by two-dimensional electrophoresis (2-DE). The results showed that the multiple Hb genes and isoforms are co-expressed in schizothoracinae fishes endemic to the Qinghai-Tibetan Plateau (QTP). Phylogenetic analyses of Hb genes indicated that the evolutionary relationships are not easily reconciled with the organismal phylogeny. Furthermore, evidence of positive selection was found in the Hb genes of schizothoracinae fishes through the selection pressure analysis. We demonstrated that positively selected sites likely facilitated the functional divergence of Hb isoforms. Taken together, this study indicated that the long-term maintenance of high Hb concentration may be a disadvantage for physiologically acclimating to high altitude hypoxia. Meanwhile, the genetically based modification of Hb-O2 affinity in schizothoracinae fishes might facilitate the evolutionary adaptation to Tibetan aqueous environments.

Characterization and complexity of transcriptome in Gymnocypris przewalskii using single-molecule long-read sequencing and RNA-seq

The Tibetan Schizothoracinae fish Gymnocypris przewalskii has the ability to adapt to the extreme plateau environment, making it an ideal biological material for evolutionary biology research. However, the lack of well-annotated reference genomes has limited the study of the molecular genetics of G. przewalskii. To characterize its transcriptome features, we first used long-read sequencing technology in combination with RNA-seq for transcriptomic analysis. A total of 159,053 full-length (FL) transcripts were captured by Iso-Seq, having a mean length of 3,445 bp with N50 value of 4,348. Of all FL transcripts, 145,169 were well-annotated in the public database and 134,537 contained complete open reading frames. There were 4,149 pairs of alternative splicing events, of which three randomly selected were defined by RT–PCR and sequencing, and 13,293 long non-coding RNAs detected, based on all-vs.-all BLAST. A total of 118,185 perfect simple sequence repeats were identified from FL transcripts. The FL transcriptome might provide basis for further research of G. przewalskii.

Comparative phylogeny of (Schizothorax esocinus) with reference to 12s and 16 sribosomal RNA from River Swat, Pakistan

Schizothorax esocinus is one of the important cold water delicious fish belonging to family Cyprinidae and found in River Swat which is one of the main river flowing in Khyber Pakhtunkhwa, Pakistan.The complete mitochondrial genomes of the S. esocinus species was found to be 16,591bp. Phylogenetic analysis of S. esocinus based on 12 s ribosomal RNA and 16S rRNA confirmed that, the phylogenetic position of S. esocinus was slightly different, but clustered closed to S. plagiostomus, S. labiatus, S. richardsonii, S. nepalensis, and S. progastus predicting a close homology in genome and hence a monophyletic line of evolution also this specie showed close relationship and homologs to the Aspiorhynchus laticeps, Spinibarbus sinensis, Aspiorhynchus laticeps, and Percocypris respectively. This study provided phylogenetic relationship between Schizothoracinae fishes and with the other fishes of family cyprinidae even at the subfamily level.

Comprehensive transcriptome data for endemic Schizothoracinae fish in the Tibetan Plateau

The Schizothoracinae fishes, endemic species in the Tibetan Plateau, are considered as ideal models for highland adaptation and speciation investigation. Despite several transcriptome studies for highland fishes have been reported before, the transcriptome information of Schizothoracinae is still lacking. To obtain comprehensive transcriptome data for Schizothoracinae, the transcriptome of a total of 183 samples from 14 representative Schizothoracinae species, were sequenced and de novo assembled. As a result, about 1,363 Gb transcriptome clean data was obtained. After the assembly, we obtain 76,602–154,860 unigenes for each species with sequence N50 length of 1,564–2,143 bp. More than half of the unigenes were functionally annotated by public databases. The Schizothoracinae fishes in this work exhibited diversified ecological distributions, phenotype characters and feeding habits; therefore, the comprehensive transcriptome data of those species provided valuable information for the environmental adaptation and speciation of Schizothoracinae in the Tibetan Plateau.

DNA barcodes and their characteristic diagnostic sites analysis of Schizothoracinae fishes in Qinghai province

The Qinghai-Tibetan Plateau (QTP), the source and upper reaches of many Asian rivers, are crisscrossed by rivers and dotted with lakes. Schizothoracinae fishes, species native to the QTP, are distributed widely through these rivers and lakes. Over the past decades, ecological protection has become increasingly intense. The rapid acquisition of the genetic information and accurate gene sequence database are assumed to play an important role in the conservation of species diversity and biodiversity. In this study, 153 COI sequences (648bp in length) covering 13 species in 8 genera of Schizothoracinae fishes in Qinghai Province were used to determine whether barcode could identify Schizothoracinae species accurately. The average Kimura two parameter (K2P) genetic distances within and among species were 0.35% and 8.83%, respectively. The maximum K2P distance within species was observed in Gymnocypris eckloni (1.36%) while minimum K2P distance among species was observed between Chuanchia labiosa and Schizopygopsis pylzovi (0.23%). Overlaps existed in K2P distance intra- and inter- species based on both the genes. Eleven groups with 9 single-species groups and 2 multi-species groups were identified through Automatic Barcode Gap Discovery System, which were consistent with the overlaps of K2P distance. 96.7% as the accurate ratio for COI barcode was calculated and high solution was observed in the phylogenetic trees based on COI gene and Cyt b gene. Except for the similar results based on two genes above, COI barcode was more economical than Cyt b gene. The SOM model successfully predicted characteristic-diagnostic sites at species level: 36 characteristic-diagnostic sites from eight species, in which 12 from Gmnodiptychus pachycgeilus, 2 from Platypharodon extremus, 7 from Ptychobarbus kaznakovi, 2 from Schizopygopsis anteroventris, 2 from Schizopygopsis malacanthus, 3 from Schizopygopsis malacanthus chengi, 3 from Schizothorax dolichonema and 5 from Schizothorax lantsangensis. Our results show that Schizothoracinae fishes can be identified validly by using COI DNA barcode. Thirty-six characteristic-diagnostic sites were proposed to be applied into works of species identification for the Schizothoracinae fishes in Qinghai Province.

Phylogenetic association of Schizothorax esocinus with other Schizothoracinae fishes based on protein coding genes

Whole mitochondrial DNA (mtDNA) for Schizothorax esocinus sequence was found to be 16,591 bp with 13 protein-coding genes, 2 rRNAs genes, 22 tRNA genes, and 2 non-coding region. For estimating phylogenetic association of a species, protein coding genes of mitochondrial DNA are considered to be a great value. In this study, we sequenced protein-coding genes of Schizothorax esocinus, based upon which we compared the 23 Schizothoracinae fishes with S esocinus by phylogenetic association. We analyzed that S. esocinus to be closely associated with Schizothorax labiatus, Schizopyge niger, Schizothorax nepalensis with high-bootstrap values. Such empirical data would be important for understanding the phylogenetic relationship of Schizothorax species.

Growth and feeding habits of invasive Pseudorasbora parva in the Chabalang Wetland (Lhasa, China) and its trophic impacts on native fish

In recent years, fish invasion has become one of the main reasons for the decline of native fish stocks. Pseudorasbora parva is considered one of the major invasive species worldwide. The present study investigated the fish resources of the Chabalang Wetland (Lhasa, Tibet) during different seasons in 2009 and 2013. Four hundred and twelve individuals were subsampled to estimate age, growth, and feeding habit of P. parva. Furthermore, food relationships between P. parva and the native Schizothoracinae fish were also examined. The results revealed a significant shift in species composition and community structure characterized by the disappearance of native fish and outbreak of non-native fish. The percentage of nonnative P. parva in the fish collections significantly increased from 33.64% in 2009 to 64.08% in 2013. The standard length (SL) ranged from 22.00 to 78.71 mm, and their age was 1–5 yr. The von Bertalanffy function was used to model the observed length-at-age data as Lt =112.19(1–e-0.1495 ( t +0.8012) ) for females and as Lt =123.12 (1–e-0.1500 ( t +0.7132) ) for males. The results indicated that P. parva in Tibet has lower growth and mortality rates compared with that from the native ranges. Ninety-seven prey taxa belonging to 9 prey categories were identified in the gut of 38 P. parva. P. parva can be considered a generalized and opportunistic predator, competing with the native fish, especially Schizothorax o’connori, Schizopygopsis younghusbandi younghusbandi, and Ptychobarbus dipogon, for Bacillariophyta and Chironomid larvae. This is an important reason for the decline in native fish population.

Climate-driven synchrony in growth-increment chronologies of fish from the world's largest high-elevation river

Understanding how sensitive aquatic ecosystems respond to climate change is essential for effective biodiversity conservation and management. The Tibetan Plateau (TP) is one of the most globally sensitive areas to climate change with potentially serious implications for resident fish populations and aquatic food webs. However, how the growth of TP fish responds to climate change, and how this response varies with the trophic level of different species remain unknown. We established growth-increment chronologies of two important Schizothoracinae fishes that are endemic to the TP (e.g., the omnivorous Schizopygopsis younghusbandi and the carnivorous Oxygymnocypris stewartii) from the Yarlung Tsangpo River, using otolith increment width measurements and dendrochronological methods. These growth chronologies were correlated with key indicators of environmental variation (temperature, precipitation, and river discharge) to examine the potential effects of climate change. The two chronologies displayed synchronous responses to recent climate change. In this glacial-fed river, the growth of both fish species was significantly and negatively correlated with the mean annual air temperature, while it was positively but not significantly correlated with precipitation and discharge. The higher trophic level species O. stewartii was more sensitive to climate than was the lower trophic level species S. younghusbandi, with temperature variables explaining a higher proportion of growth variability in O. stewartii (64.6%) than in S. younghusbandi (46.4%). The results collectively indicate that both species are highly sensitive to climate change, which may affect fish growth by altering water environment, fish physiological fitness and food availability. This study provides further empirical evidence of the utility of growth-increment chronologies for investigating the effects of climate change on aquatic ecosystems across different basins and water body types of the TP. These findings can inform conservation and management actions related to addressing climate change on the TP and other high-elevation temperate systems found worldwide.

Precision of age estimations from otolith, vertebra, and opercular bone of Gymnocypris firmispinatus (Actinopterygii: Cypriniformes: Cyprinidae) in the Anning River, China

Background. Gymnocypris firmispinatus Wu et Wu, 1988 is a small fish with the maximum total length of 242 mm, which occurs only in the Jinsha River and its tributaries (China), at altitudes above 2000 m. Nowadays, G. firmispinatus had been placed in a dangerous situation, due to hydropower station and excessive fishing. However, attempts to develop an effective population management strategy have been obstructed by lack of basic biological information, especially for age estimation. As we known, sectioned otoliths provide the most precise age estimates of many Schizothoracinae fishes, vertebrae and opercular bones were also used for age determination of some fish species. This work aimed to assess the suitability of three calcified structures (otolith, vertebra, and opercular bone) for age estimation of G. firmispinatus. Materials and methods. The annulus characteristics of otolith, vertebra, and opercular bone were described. Annual periodicity was verified by marginal increment ratio (MIR) analysis in otoliths and edge analysis in vertebrae and opercular bones. Otoliths, vertebrae, and opercular bones were examined to determine which structure produced the most precise and accurate age estimates in G. firmispinatus, mainly by scoring for readability on a five-point scale and calculating the index of the mean percentage error (IMPE). Results. Microscopically, otoliths and vertebrae showed a typical pattern of opaque-and translucent-zones, attributed to slow and fast growth periods. Annuli formed between March and May once a year in otoliths and vertebrae. Forty-four percent of the opercular bones were scored as unreadable. The value of IMPE between the two counts was lowest for otoliths (4.25%), followed by vertebrae (6.21%) and opercular bones (11.58%). The IMPE value of vertebra vs. otolith was 11.05%, while that of opercular bone vs. otolith was 23.03%. Vertebrae and otoliths matched closely only for the first 4 years of life, while opercular bones appeared to underestimate the age of G. firmispinatus. Conclusion. Annuli in the otoliths and vertebrae both formed once a year up to age 8, and otoliths would be the most precise structure for age determination in G. firmispinatus. Vertebrae and otoliths matched closely up to age 4, while opercular bones could not be used for age estimation for the species.

Length-weight relationships of two schizothoracinae fish species from the Maquan River, the upper reaches of the Yarlung Zangbo River, Tibet, China

Summary Length-weight relationships (LWRs) were determined for two endemic fish species from the Maquan River, the upper of the Yarlung Zangbo River: (Ptychobarbus dipogon Regan, 1905, Schizothorax waltoni Regan, 1905). All the specimens were collected between May and September of 2014. Length–weight relationships for these two fish species were determined for the first time, and new maximum body weights were recorded for these two species. These results will be useful for fishery research, management and conservation of the Yarlung Zangbo River.

The microRNA repertoire of Tibetan naked carp Gymnocypris przewalskii: A case study in Schizothoracinae fish on the Tibetan Plateau.

Tibetan naked carp Gymnocypris przewalskii is an ideal model system to study highland adaptation of fish, because it evolved specific genetic and phenotypic characteristics to adapt to chronic cold and alkaline environments in Lake Qinghai. MicroRNAs (miRNAs) are small noncoding RNAs that regulating gene expression post-transcriptionally in a wide range of biological processes. In this study, we focus on the role of miRNAs in adaptation of G. przewalskii to extreme conditions in Lake Qinghai. We generate the first miRNAome of G. przewalskii in Schizothoracinae fish. Using several genomic resources, we inferred 341 conserved miRNAs belonged to 152 miRNA families and 43 novel miRNAs in G. przewalskii, and also identified 15 teleost-specific miRNAs. Using a large scale of conserved miRNAs, we constructed a high-confidence phylogenetic tree between teleost and mammals than mitochondria and nuclear genes. In addition, we found that several miRNA family (e.g. miR-10 and let-7) members highly expressed in G. przewalskii, which may function in multiple biological processes. Finally, we predicted a total of 34,258 miRNA targets genes. Conserved miRNAs target genes participating in signal transduction, cell differentiation and biosynthetic process, and showed signature of functional constraint. While novel miRNAs in a species displayed species-specific targets and involved in ion binding, transport and oxidoreductase activity, may affect the expression patterns of targets with signature of gene family expansion or positive selection under extreme environment. Taken together, this study demonstrated that miRNAs may involve into roles of adaptation of G. przewalskii to highland aquatic environment, and also provide insights into miRNA regulatory network in Schizothoracinae fish as a case study.

Comprehensive transcriptomic analysis of Tibetan Schizothoracinae fish Gymnocypris przewalskii reveals how it adapts to a high altitude aquatic life

BackgroundUnderstanding the genetic basis of adaptation to high altitude life is of paramount importance for preserving and managing genetic diversity in highland animals. This objective has been addressed mainly in terrestrial fauna but rarely in aquatic animals. Tibetan Schizothoracinae fish is the ideal model system in evolutionary biology, carrying key insights into evolutionary genetics of speciation and adaptation at high altitude. Gymnocypris przewalskii is the newly formed Schizothoracinae fish species in the Tibetan Plateau, inhabits chronic cold, extreme saline and alkaline aquatic environment in Lake Qinghai, thus evolving the unique genomic signatures to adapt extremely severe environments.ResultsTo characterize its genomic features, we assembled de novo transcriptome of G. przewalskii from Lake Qinghai. Intriguingly, by comparative genomic analyses of G. przewalskii and 8 other fish species, we identified potential expansions in gene families related to energy metabolism, transport and developmental functions, possibly underlying the adaptation to these environmental stresses. Through comprehensive molecular evolution analyses, we found that sets of genes controlling mitochondrion, ion homoeostasis, acid-base balance and innate immunity show significant signals of positive selection. Compared to previous studies on highland fishes, we failed to identify any positively selected genes related to hypoxia response.ConclusionsOur findings provide comprehensive insights into the genetic basis of teleost fish that underlie their adaptation to extreme high altitude aquatic life on the Tibetan Plateau.

Length-weight relationships of three schizothoracinae fish species from the Niyang River, a branch of the Yarlung Zangbo River, Tibet, China

The focus was on the length–weight relationships of three schizothoracinae species endemic to Tibet, including Schizothorax oconnori Lloyd, 1908, Ptychobarbus dipogon (Regan, 1905) and Schizopygopsis younghusbandi Regan, 1905, all of which are characterized by slow growth, late maturation and vulnerability to the environment (Ma et al., 2010, 2012; Duan et al., 2014). Among them, Schizothorax oconnori is an endangered fish and listed in the China species Red List (Wang and Xie, 2004, 2009). Samples were obtained by drift net fishing (mesh size 2 cm × 3 cm; 50 m net length) in November 2008. The r2 value was 0.94, 0.97, 0.98 and the b value 3.51, 3.12, 3.16, representing Schizothorax oconnori, Ptychobarbus dipogon, and Schizopygopsis younghusbandi, respectively.

Isolation and characterization of ten polymorphic microsatellite loci from Gymnocypris chui and cross-amplification in seven highly specialized Schizothoracinae fishes

Journal of Applied IchthyologyVolume 32, Issue 4 p. 718-720 Short Communication Isolation and characterization of ten polymorphic microsatellite loci from Gymnocypris chui and cross-amplification in seven highly specialized Schizothoracinae fishes R. Y. Zhang, R. Y. Zhang Key Laboratory of Adaptation and Evolution of Plateau Biota, Northwest Institute of Plateau Biology, Chinese Academy of Sciences, Xining, China Laboratory of Plateau Fish Evolutionary and Functional Genomics, Northwest Institute of Plateau Biology, Chinese Academy of Sciences, Xining, China University of Chinese Academy of Sciences, Beijing, ChinaSearch for more papers by this authorK. Zhao, Corresponding Author K. Zhao Key Laboratory of Adaptation and Evolution of Plateau Biota, Northwest Institute of Plateau Biology, Chinese Academy of Sciences, Xining, China Laboratory of Plateau Fish Evolutionary and Functional Genomics, Northwest Institute of Plateau Biology, Chinese Academy of Sciences, Xining, China Author's address: Kai Zhao, Northwest Institute of Plateau Biology, Chinese Academy of Sciences, 23 Xinning Road, Xining, Qinghai 810001, China. E-mail: zhaokai@nwipb.cas.cnSearch for more papers by this author R. Y. Zhang, R. Y. Zhang Key Laboratory of Adaptation and Evolution of Plateau Biota, Northwest Institute of Plateau Biology, Chinese Academy of Sciences, Xining, China Laboratory of Plateau Fish Evolutionary and Functional Genomics, Northwest Institute of Plateau Biology, Chinese Academy of Sciences, Xining, China University of Chinese Academy of Sciences, Beijing, ChinaSearch for more papers by this authorK. Zhao, Corresponding Author K. Zhao Key Laboratory of Adaptation and Evolution of Plateau Biota, Northwest Institute of Plateau Biology, Chinese Academy of Sciences, Xining, China Laboratory of Plateau Fish Evolutionary and Functional Genomics, Northwest Institute of Plateau Biology, Chinese Academy of Sciences, Xining, China Author's address: Kai Zhao, Northwest Institute of Plateau Biology, Chinese Academy of Sciences, 23 Xinning Road, Xining, Qinghai 810001, China. E-mail: zhaokai@nwipb.cas.cnSearch for more papers by this author First published: 15 April 2016 https://doi.org/10.1111/jai.13066Citations: 1Read the full textAboutPDF ToolsRequest permissionExport citationAdd to favoritesTrack citation ShareShare Give accessShare full text accessShare full-text accessPlease review our Terms and Conditions of Use and check box below to share full-text version of article.I have read and accept the Wiley Online Library Terms and Conditions of UseShareable LinkUse the link below to share a full-text version of this article with your friends and colleagues. Learn more.Copy URL Share a linkShare onFacebookTwitterLinkedInRedditWechat Citing Literature Volume32, Issue4August 2016Pages 718-720 RelatedInformation

Signature of adaptive evolution and functional divergence of TLR signaling pathway genes in Tibetan naked carp Gymnocypris przewalskii

The Tibetan naked carp Gymnocypris przewalskii is a newly diverged species from Schizothoracinae fish, only dwelled in the China largest salt lake, Qinghai Lake. Its living condition is hypoxia, cold temperature and high salinity. Noteworthy, it is more susceptible to parasite infection in freshwater that wild environment. Our recent genome wide analyses studies indicated that naked carp TLR signaling pathway genes, TLR4 and TLR9 within TLR family, IRF3, IRF5 and IRF7 within IRF family underwent significant positive selection in response to the inhospitable environment trigged by the uplift of the Tibetan Plateau. The experimental evidences indicate that TLR4 gene function towards neofunctionalization when exposure to parasite infection, IRF3 and IRF4 towards significant functional divergence in biotic and abiotic stress response. These finding provide novel insights into evolutionary history and molecular mechanism of highland fish respond to environment changes.

Extensive genetic divergence among Diptychus maculatus populations in northwest China

D. maculates is a kind of specialized Schizothoracinae fish has been locally listed as a protected animal in Xinjiang Province, China. Ili River located in north of Tianshan Mountain and Tarim River located in north of Qinghai-Tibetan Plateau were two main distribution areas of this fish. To investigate the genetic diversity and genetic structure of D. maculates, four populations from Tarim River system and two populations from Ili River system were collected in this study. A 570-bp sequence of the control region was obtained for 105 specimens. Twenty-four haplotypes were detected from six populations, only Kunes River population and Kashi River population shared haplotypes with each other. For all the populations examined, the haplotype diversity (h) was 0.904 8±0.012 6, nucleotide diversity (π) was 0.027 9±0.013 9, and the average number of pairwise nucleotide differences (k) was 15.878 3±7.139 1. The analysis of molecular variance (AMOVA) showed that 86.31% of the total genetic variation was apportioned among populations, and the variation within sampled populations was 13.69%. Genetic differences among sampled populations were highly significant. Fst statistical test indicated that all populations were significantly divergent from each other (P<0.01). The largest Fst value was between Yurungkash River population and Muzat River population, while the smallest Fst value was between Kunes River population and Kashi River population. NJ phylogenetic tree of D-loop haplotypes revealed two main clades. The neutrality test and mismatch distribution analysis suggested that the fish had went through a recent population expansion. The uplift of Tianshan Mountain and movement of Qinghai-Tibetan Plateau might contribute to the wide genetic divergence of D. maculates in northwest China.