Xinjiang Fisheries Research Institute

Urunchi, China

Xinjiang Fisheries Research Institute

Urunchi, China
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Lei D.J.,Huazhong Agricultural University | Zhao G.,Huazhong Agricultural University | Xie P.,Huazhong Agricultural University | Li Y.,Huazhong Agricultural University | And 4 more authors.
Genetics and Molecular Research | Year: 2017

We used next-generation sequencing technology to characterize 19 genomic simple sequence repeat (SSR) markers and 11 expressed sequence tag (EST) SSR markers from Leuciscus leuciscus baicalensis, a small freshwater fish that is widely distributed in Xinjiang, China. Primers were used to test for polymorphisms in three L. leuciscus baicalensis populations in Xinjiang. There were 4-27 (average 11.3) alleles (NA), the expected heterozygosity (HE) was 0.36-0.94 (average 0.75 ± 0.14), the observed heterozygosity (HO) was 0.37-1.00 (average 0.68 ± 0.18), and the polymorphism information content (PIC) was 0.31-0.93 (average 0.71). The averages of HE and PIC for the EST-SSR markers were slightly lower than for the genomic SSR markers. Genetic analysis of the three populations showed similar results for PIC, HE, and NA. Amplifications were performed in nine other species; the top three transferability values were for Rutilus lacustris (80%), Leuciscus idus (76.7%), and Phoxinus ujmonensis (63.3%), with the following average values: PIC (0.56, 4.46, and 0.52); NA (0.40, 3.00, and 0.32); and HO (0.44, 2.74, and 0.22), respectively. L. leuciscus baicalensis is one of the most important commercial fish in Xinjiang, but in recent years, fishery resources have decreased sharply owing to water conservation projects, unreasonable utilization, and invasion by alien species. These novel SSR markers are appropriate for studies involving fingerprinting, gene flow, genetic diversity, population structure, and molecular-assisted breeding, and could contribute to the conservation of L. leuciscus baicalensis. © 2017 The Authors.


Huanhuan X.,Ocean University of China | Chongliang Z.,Ocean University of China | Binduo X.,Ocean University of China | Ying X.,Ocean University of China | And 4 more authors.
Haiyang Xuebao | Year: 2017

The species composition and spatial pattern of the ichthyoplankton community and its relationship with environmental factors were analyzed using ecological diversity indices and multivariate statistical analysis. Based on the data collected from the ichthyoplankton survey, which was conducted by horizontal tows using plankton nets in the coastal waters of central and southern Yellow Sea in the spring of 2015. In total, 35 species were identified for the ichthyoplankton. Among them, there were 21 fish eggs and 23 larvae and juveniles. They belonged to 8 orders, 18 families, and 34 genera. The ichthyoplankton were dominated by species Engraulis japonices, Platycephalss indices, Callionymss spp. and Larimichthes polyactis. The main ecological groups were the brackish water group, coastal group and offshore type. Cluster analysis showed that the ichthyoplankton community can be divided into three station groups, including group A (mainly distributed in the Haizhou Bay) which was dominated by species of Engraulis japonices and Callionymss spp., group B (mainly in the coastal waters of Jiangsu Province) which was dominated by species of Pseudosciaena polyactis, Setipinna taty and Collichthss lucidss, group C (mainly in the coastal and offshore waters of Jiangsu Province), which was dominated by Platycephalss indices. Among them, Engraulis japonices and Callionymss spp. were mainly distributed in the Haizhou Bay fishing ground. The main distribution area of Platycephalss indices was located in Lvsi fishing ground, and Pseudosciaena polyactis was in the northern Lvsi fishing ground. The species diversity index and evenness index of group B was the highest among the three station groups. The ecotypes and thermophily of parent fishes were different in three station groups and were closely related to their habitats. The canonical correspondence analysis (CCA) suggested that the main environmental factors affecting the spatial patterns of ichthyoplankton community in the spring were depth, salinity, sea surface temperature in the coastal waters of central and southern Yellow Sea. Meanwhile, it was also affected comprehensively by many factors such as ocean currents and bottom sediment types. The results revealed the spatial pattern of ichthyoplankton communities in the central and southern Yellow Sea, providing scientific basis and technical support for conservation measures such as scientific development of aquatic germplasm resources protection area and the scientific management of fishery resources in the waters. © 2017, Editorial Ciencias Medicas. All rights reserved.


Yang T.,Xinjiang Fisheries Research Institute | Yang T.,Ocean University of China | Meng W.,Xinjiang Fisheries Research Institute | Zhang R.,Xinjiang Fisheries Research Institute | And 4 more authors.
Russian Journal of Genetics | Year: 2016

DNA barcoding was a molecular diagnostic method that provided rapid and accurate species identification. The 650 bp-length cytochrome c oxidase subunit I (COI) gene of 33 species in Irtysh River China was sequenced and analyzed in this study. The average intra-species, -genus, -family, and -order of Kimura two parameter (K2P) distances were 0.003, 0.060, 0.163 and 0.240, respectively. The genetic distance between genus Barbatula and Cobitis was the largest whereas that between genus Hypophthalmichthys and Aristichthys was the smallest. The neighbour-joining tree constructed by all 44 haplotypes was divided into two major clusters: Cypriniformes fishes and other fishes. A cryptic species of Barbatula barbatula was detected according to 2% genetic threshold. © 2016, Pleiades Publishing, Inc.


Lei D.,Huazhong Agricultural University | Conteh Kanu U.,Huazhong Agricultural University | Zhao G.,Huazhong Agricultural University | Xie P.,Huazhong Agricultural University | And 4 more authors.
Mitochondrial DNA | Year: 2015

Based upon the morphological characters, the genus Triplophysa (plateau Loach) is a highly diverse group in the family Balitoridae (or Cypriniformes, Cobitoidea) with 133 valid species. Therefore, the taxonomic relationship of this species at the genetic level remains ambiguous. In the present study, we sequenced the complete mitochondrial genome of Triplophysa dorsalis. In order to understand its position and genetic background at the gene level, the characteristics of mitochondrial DNA sequences and phylogenetic relationship were examined. The mitochondrial genome of T. dorsalis is similar to those of the typical vertebrates, 16 572 bp in length, including 13 protein-coding genes, 2 ribosomal RNA genes, 22 transfer RNA genes, and a non-coding control region (D-loop). All genes were encoded on the heavy strand except for ND6 and 8 tRNA genes. The overall base composition of the heavy strand was 28.16%, 28.41%, 25.62% and 17.82% for A, T, C and G, respectively. Phylogenetic analyses showed that the seven Triplophysa species clustered together with T. dorsalis to form a sister group with Triplophysa strauchii, T. bleekeri, T. stoliczkai and T. bombifrons. The two genera Triplophysa and Barbatula formed a sister-group relationship, the species Homatula potanini located in the intermediate position, and the genus Leptobotia elongata was in the basal position in the subfamily Nemacheilidae. Further investigations with more Triplophysa species need to be performed for better understanding of the evolutionary history of this fascinating genus. © 2015 Taylor & Francis.


Yang T.,Xinjiang Fisheries Research Institute | Yang T.,Ocean University of China | Meng W.,Xinjiang Fisheries Research Institute | Chen P.,Xinjiang Fisheries Research Institute | Gao T.,Ocean University of China
Mitochondrial DNA | Year: 2015

The complete nucleotide sequence of Gymnodiptychus dybowskii mitogenome (16 677 bp) has been determined, containing 13 protein-coding genes, two ribosomal RNA genes, 22 tRNA genes, and one non-coding control region. The base composition is 28.04% A, 26.92% T, 18.94% G, 26.10% C, with an AT bias of 54.97%. The origin of light-strand replication (OL) is found between tRNAAsn and tRNACys, which has the potential to fold in a step-loop secondary structure with a stem formed by 11 pairs of nucleotides and a loop of 14 nucleotides. The phylogenetic analysis indicates close relationship between genus Gymnodiptychus and Diptychus. © 2015 Taylor & Francis.


Zhao X.,Huazhong Agricultural University | Hu S.,Huazhong Agricultural University | Xie P.,Huazhong Agricultural University | Ao M.,Huazhong Agricultural University | And 3 more authors.
Mitochondrial DNA | Year: 2015

In this study, we cloned and sequenced the complete mitochondrial genome of Barbatula nuda. The genome was found to be 16,619 bp in size with a mostly conserved structural organization when compared with that of other teleost fish. It contained 37 genes (13 protein-coding genes, 22 transfer RNA genes, and 2 ribosomal RNA genes) and 2 main non-coding regions (the control region and the origin of the light-strand replication). All protein-coding genes are initiated with ATG except for COX 1, which begin with GTG instead. However, the termination codons of 13 protein-coding genes varied with TAA, TA, T or TAG. The complete mitochondrial genome sequence is useful for phylogenetic analysis and studies of population genetics of B. nuda. © 2013 Informa UK Ltd.


Hu S.,Huazhong Agricultural University | Niu J.,Xinjiang Fisheries Research Institute | Xie P.,Huazhong Agricultural University | Liu C.,Huazhong Agricultural University | And 3 more authors.
Mitochondrial DNA | Year: 2015

The complete mitochondrial genome of Leuciscus leuciscus baicalensis was cloned and sequenced in the present study. The genome which had a mostly conserved structural organization in comparison with that of other teleost fish was 16,606 bp in size. It consisted of 37 genes (13 protein-coding genes, 22 transfer RNA genes and 2 ribosomal RNA genes), and 2 main non-coding regions (the control region and the origin of the light strand replication). All protein-coding genes started with ATG except for COX 1, which began with GTG. However, the termination codons of 13 protein-coding genes varied with TAA, TA, T or TAG. The complete mitochondrial genome sequence provided useful information for phylogenetic analysis and studies of population genetics of L. leuciscus baicalensis. © 2014 Informa UK Ltd.


Wang F.,Huazhong Agricultural University | Niu J.,Xinjiang Fisheries Research Institute | Hu S.,Huazhong Agricultural University | Xie P.,Huazhong Agricultural University | And 4 more authors.
Mitochondrial DNA | Year: 2016

In this study, we determined the complete nucleotide sequence of the mitochondrial genome for a cold water fish, Leuciscus idus. The complete mitochondrial genome was sequenced and analyzed using the primer walking method and 30 pairs of newly designed primers were used. Direct sequencing of the PCR products demonstrated that the genome contained the same 37 mitochondrial genes (two ribosomal RNA, 22 transfer RNA and 13 protein-coding genes) and two main non-coding regions (the control region and the origin of the light strand replication) as those found in other vertebrates. Nearly all the protein-coding genes start codons were ATG except COX 1, meanwhile, the termination codons of which varied with TAA, TA, T, or TAG. © 2014 Informa UK Ltd.


Xie P.,Huazhong Agricultural University | Ao M.,Huazhong Agricultural University | Liu C.,Huazhong Agricultural University | Zhang Z.,Huazhong Agricultural University | And 4 more authors.
Mitochondrial DNA | Year: 2016

As reported, previous studies of Phoxinus phoxinus ujmonensis (Cypriniformes: Cyprinidae) have focused primarily on morphology and ecology. In this study, we cloned and sequenced the complete nucleotide sequence of the mitochondrial genome for P. phoxinus ujmonensis. The mitogenome was 17,738 bp in length, including 13 protein-coding genes, 22 transfer RNA genes, 2 ribosomal RNA genes and 1 control region. All genes were encoded on the heavy strain except for ND6 and eight tRNA genes. The overall base composition of the heavy strain was 28.50% for A, 28.24% for T, 25.32% for C and 17.94% for G. The control region was revealed to contain tandem repeats. The mitogenome data of P. phoxinus ujmonensis should contribute to phylogenetic analysis and studies of population genetics of Phoxinus fishes. © 2014 Informa UK Ltd.


Ao M.,Huazhong Agricultural University | Xie P.,Huazhong Agricultural University | Zhao G.,Huazhong Agricultural University | Guo F.,Huazhong Agricultural University | And 2 more authors.
Mitochondrial DNA | Year: 2016

In this study, the complete sequence of the 16,527 base pairs Cottus sibiricus altaicus mitochondrial genome was presented. The composition of the whole mitochondrial DNA was 26.93% for A, 26.30% for T, 29.70% for C, 17.07% for G. The genes found in C. sibiricus altaicus and other vertebrate mtDNA were the same, which contained the genes for 13 proteins, 22 transfer RNAs, 2 ribosomal RNAs and 2 main non-coding genes (the control region (CR) and the origin of the light strand replication (OL). The sequence showed high economy of organization in that there were few nucleotides between individual genes except for the control region. © 2014 Informa UK Ltd.

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