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StructureSelector: A web‐based software to select and visualize the optimal number of clusters using multiple methods
A web‐based user‐friendly software structureselector is developed to calculate the four appealing alternative statistics together with the commonly used Ln Pr(X|K) and ΔK statistics.
Development and preliminary evaluation of a genomewide single nucleotide polymorphisms resource generated by RAD‐seq for the small yellow croaker (Larimichthys polyactis)
- Bai-dong Zhang, D. Xue, Juan Wang, Yu-Long Li, Bing-Jian Liu, Jin-Xian Liu
- BiologyMolecular ecology resources
- 1 May 2016
The generated SNP resources in this study provided a valuable tool for future population genetics and genomics studies of L. polyactis and offered a chance to evaluate potential adaptive divergence.
Genome-Wide SNP Discovery, Genotyping and Their Preliminary Applications for Population Genetic Inference in Spotted Sea Bass (Lateolabrax maculatus)
- Juan Wang, D. Xue, Bai-dong Zhang, Yu-Long Li, Bing-Jian Liu, Jin-Xian Liu
- BiologyPloS one
- 23 June 2016
The analyses with the SNPs developed in the present study highlighted the importance of genome-wide genetic variation for inference of population structure and local adaptation in L. maculatus.
Genetic diversity and population structure of the roughskin sculpin (Trachidermus fasciatus Heckel) inferred from microsatellite analyses: implications for its conservation and management
The results highlight the need for in situ conservation efforts for T. fasciatus across its entire distribution range, through maximizing habitat size and quality to preserve overall genetic diversity and evolutionary potential.
Population genomic evidence for high genetic connectivity among populations of small yellow croaker (Larimichthys polyactis) in inshore waters of China
Genetic diversity and population structure of the veined rapa whelk Rapana venosa along the coast of China based on microsatellites
- D. Xue, Tao Zhang, Yu-Long Li, Jin-Xian Liu
- Environmental Science, BiologyFisheries Science
- 14 June 2017
A significant isolation by distance pattern was observed in this species, indicating that isolation by geographic distance may play an important role in population differentiation and could provide valuable genetic information for the fishery management of R. venosa.
Comprehensive assessment of population genetic structure of the overexploited Japanese grenadier anchovy (Coilia nasus): Implications for fisheries management and conservation
Female-specific genomic regions and molecular sex identification of the clearhead icefish (Protosalanx hyalocranius)
Structural genomic evidence for the ZZ/ZW sex determination system in P. hyalocranius is provided and the female-specific markers and rapid and cost-effective PCR-based genetic sex identification method should have applications in further studies of sex determination mechanism for this species.
Population Genomic Signatures of Genetic Structure and Environmental Selection in the Catadromous Roughskin Sculpin Trachidermus fasciatus
Results of the present population genomic work provided important contributions to the understanding of genetic differentiation and adaptation to changing environments.
An optimized approach for local de novo assembly of overlapping paired-end RAD reads from multiple individuals
- Yu-Long Li, D. Xue, Bai-dong Zhang, Jin-Xian Liu
- Environmental ScienceRoyal Society Open Science
- 1 February 2018
This work presents an efficient optimized approach with a pipeline software, RADassembler, which makes full use of paired-end RAD reads with random-sheared ends from multiple individuals to assemble RAD contigs, providing an optimal tool for dealing with the complexity in the assembly of Pairing site-associated DNA reads withrandom- sheared ends for non-model species in ecological, evolutionary and conservation studies.