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- 저자 : Jianlong Ge (검색결과 3 건)
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Jianlong Ge,Siqing Chen,Changlin Liu,Li Bian,Huiling Sun,Jie Tan 한국유전학회 2017 Genes & Genomics Vol.39 No.3
The spotted halibut Verasper variegatus is an economically important flatfish species distributed in Japan, Korea and China. However, the genomic resources regarding this species were scarcity, which hindered our understanding of the genetics and biological mechanisms in spotted halibut. In this study, we examined the global transcriptome from six major tissues of spotted halibut. Approximately 40 million of high quality reads were generated using Illumina paired-end sequencing technology. More than 9 Gbp data were generated, and de novo assembled into 59,235 unigenes, with an N50 of 938 bp. Based on sequence similarity search with known protein database, 34,084 (57.5%) showed significant similarity to known proteins in Nr database, and 28,875 (48.7%) had BLAST hits in Swiss-Prot database. 19,562 and 23,037 unigenes were assigned into gene ontology categories and clusters of orthologous group, respectively. 9138 unigenes were mapped to 211 KEGG pathways. For functional marker development, 13,322 candidate simple sequence repeats were identified in the transcriptome and 7235 primer pairs were successfully designed. Among 72 primer pairs selected for validation, 67 (93.1%) were successful in PCR amplification and 14 (19.4%) exhibited obvious repeat length polymorphisms in a culture spotted halibut population. The transcriptomic data and microsatellite markers will provide valuable resources for future functional gene analyses, genetic map construction, and quantitative trait loci mapping in V. variegatus.
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Qi Li,Qingzhi Wang,Mingjun Qi,Jianlong Ge,Rihao Cong 한국유전학회 2011 Genes & Genomics Vol.33 No.3
A total of 113 novel EST-derived simple sequence repeat (EST-SSR) markers were developed in the Pacific oyster (Crassotrea gigas). Polymorphisms of these markers were evaluated in a wild population of 30 individuals. The number of alleles per locus ranged from 2 to 27 with an average of 6.3, and the observed and expected heterozygosities varied from 0 to 0.9667 and from 0.0333 to 0.9701, respectively. Mendelian segregations were tested for 24 of the markers that were polymorphic in one family produced by single-pair mating. Null alleles were discovered at four loci. Nine tests of segregation ratios revealed significant departures from expected Mendelian ratios. As a useful addition to the collection of the microsatellites that are now available for C. gigas, these EST-SSR markers will help the advance in investigation of QTL mapping and genetic diversity in this species.
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Li Bian,Changlin Liu,Siqing Chen,Fazhen Zhao,Jianlong Ge,Jie Tan 한국유전학회 2018 Genes & Genomics Vol.40 No.3
Golden cuttlefish (Sepia esculenta) is an important economic species in China. Because of the rapid decline of its natural resource, researchers are exploring breeding technique for this species. The major obstacle that hinders artificial breeding of S. esculenta is the low larvae survival rate. Mortality is especially high during the mouth-opening stage. Investigating the embryogenesis before the first feed could provide theoretical guidance for reproduction control and breeding of S. esculenta and other Sepia species. In this study, we analyzed the dynamics of the S. esculenta transcriptome along different stages of embryonic development by mRNA-sEq. Our bioinformatics protocol identified 1492 differentially expressed genes (DEGs) across the early developmental stages. Gene ontology enrichment analysis showed that the DEGs were significantly involved in developmental processes and molecular functions, including chitin metabolic process, peptidase activity, catalytic activity, and calcium ion binding. Our results indicated that genes related to cuttlebone development and gene regulation functions were active during the early life phase of S. esculenta. Hierarchical clustering of the DEGs reflected the successiveness of the developmental stages, revealing that gene expression patterns of neighboring stages were similar. The DEG analysis allowed us to identify specific genes and relevant biological pathways to better understand the molecular mechanisms during each developmental stage. This study provides novel insights into the processes underlying the early developmental stages of S. esculenta. The transcriptomic data and identified genes will serve as valuable references for the developmental biology of this species and will help promote its aquaculture research.
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