Author
Liang Yantao
Other affiliations: Ocean University of China
Bio: Liang Yantao is an academic researcher from Universiti Malaysia Terengganu. The author has contributed to research in topics: Breeding program & Third generation. The author has co-authored 1 publications. Previous affiliations of Liang Yantao include Ocean University of China.
Topics: Breeding program, Third generation, DNA sequencing, Biology, Aquaculture
Papers
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TL;DR: In aquaculture, high-throughput sequencing technologies have expanded gene-based to genome-wide research in aqua-culture species as discussed by the authors, and the application of these novel sequencing technologies has generated Quantitative Trait Loci (QTL) and novel genes associated with commercially important production traits, which are useful for essential processes in selective breeding programs such as population genomics evaluation, Marker-Assisted Selection (MAS) and Genomic Selection (GS).
7 citations
Cited by
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TL;DR: Wang et al. as mentioned in this paper used genotyping-by-sequencing (GBS) technology to identify the genome-wide SNPs of P . trituberculatus .
7 citations
TL;DR: Wang et al. as mentioned in this paper developed three sex-linked markers (Marker-1, 2 and 3) in spotbanded scat to elucidate its genetic foundation of sex determination.
2 citations
TL;DR: In this article , two sex-linked SNP markers were identified and validated and male specific contigs were assembled from the unmapped reads after aligning male re-sequencing data against the published XX genome.
2 citations
TL;DR: In this paper , a total of 246,243 SSRs were generated by transcriptome sequencing of P. trituberculatus, of which 66,331 had more than one SSR.
Abstract: P. trituberculatus is an economically important mariculture species in China. Evaluating its genetic diversity and population structure can contribute to the exploration of germplasm resources and promote sustainable aquaculture production. In this study, a total of 246,243 SSRs were generated by transcriptome sequencing of P. trituberculatus. Among the examined 254,746 unigenes, 66,331 had more than one SSR. Among the different SSR motif types, dinucleotide repeats (110,758, 44.98%) were the most abundant. In 173 different base repeats, A/T (96.86%), AC/GT (51.46%), and ACC/GGT (26.20%) were dominant in mono-, di-, and trinucleotide, respectively. GO annotations showed 87,079 unigenes in 57 GO terms. Cellular process, cell, and binding were the most abundant terms in biological process, cellular component, and molecular function categories separately. A total of 34,406 annotated unigenes were classified into 26 functional categories according to the functional annotation analysis of KOG, of which “general function prediction only” was the biggest category (6,028 unigenes, 17.52%). KEGG pathway annotations revealed the clustering of 34,715 unigenes into 32 different pathways. Nineteen SSRs were identified as polymorphic and, thus, used to assess the genetic diversity and structure of 240 P. trituberculatus individuals from four populations in the Bohai Sea. Genetic parameter analysis showed a similar level of genetic diversity within wild populations, and the cultured population indicated a reduction in genetic diversity compared with wild populations. The pairwise FST values were between 0.001 and 0.04 with an average of 0.0205 (p < 0.05), suggesting a low but significant level of genetic differentiation among the four populations. Structure analysis demonstrated that the four populations were classified into two groups including the cultured group and other populations. The phylogenetic tree and PCA revealed that a vast number of samples were clustered together and that cultivated individuals were distributed more centrally than wild individuals. The findings contribute to the further assessment of germplasm resources and assist to provide valuable SSRs for marker-assisted breeding of P. trituberculatus in the future.
1 citations
TL;DR: In this paper , the authors analyzed the miRNA transcriptome of Macrobrachium nipponense (M.nipponensis) at different stages of infection by Spiroplasma eriocheiris (S.eriocheiris) and obtained the key immune and autophagy-related genes and corresponding regulatory miRNAs.
1 citations