Transcriptomic Analysis of the Endangered Neritid Species Clithon retropictus: De Novo Assembly, Functional Annotation, and Marker Discovery

Genes

Yeon Soo Han¹  Mi Young Noh¹  Dae Kwon Song²  Se Won Kang²  Yong Seok Lee²  Hee-Ju Hwang²  Jong Min Chung²  So Young Park²  Min Kyu Sang²  Hongray Howrelia Patnaik²  Jun Sang Lee³  Jae Bong Lee⁴  Changmu Kim⁵  Soonok Kim⁵  Hong Seog Park⁶  Bharat Bhusan Patnaik⁷ 

[1] College of Agriculture and Life Science, Chonnam National University, 77 Yongbong-ro, Buk-gu, Gwangju 61186, Korea;Department of Life Science and Biotechnology, College of Natural Sciences, Soonchunhyang University, 22 Soonchunghyangro, Shinchang-myeon, Asan, Chungcheongnam-do 31538, Korea;Institute of Environmental Research, Kangwon National University, 1 Kangwondaehak-gil, Chuncheon-si, Gangwon-do 243341, Korea;Korea Zoonosis Research Institute (KOZRI), Chonbuk National University, 820-120 Hana-ro, Iksan, Jeollabuk-do 54528, Korea;National Institute of Biological Resources, 42 Hwangyeong-ro, Seo-gu, Incheon 22689, Korea;Research Institute, GnC BIO Co., LTD., 621-6 Banseok-dong, Yuseong-gu, Daejeon 34069, Korea;Trident School of Biotech Sciences, Trident Academy of Creative Technology (TACT), Chandaka Industrial Estate, Chandrasekharpur, Bhubaneswar, Odisha 751024, India;

关键词: Clithon retropictus;    transcriptome;    de novo assembly;    functional annotation;    simple sequence repeats;   

DOI  :  10.3390/genes7070035

来源: DOAJ

【 摘 要 】

An aquatic gastropod belonging to the family Neritidae, Clithon retropictus is listed as an endangered class II species in South Korea. The lack of information on its genomic background limits the ability to obtain functional data resources and inhibits informed conservation planning for this species. In the present study, the transcriptomic sequencing and de novo assembly of C. retropictus generated a total of 241,696,750 high-quality reads. These assembled to 282,838 unigenes with mean and N50 lengths of 736.9 and 1201 base pairs, respectively. Of these, 125,616 unigenes were subjected to annotation analysis with known proteins in Protostome DB, COG, GO, and KEGG protein databases (BLASTX; E ≤ 0.00001) and with known nucleotides in the Unigene database (BLASTN; E ≤ 0.00001). The GO analysis indicated that cellular process, cell, and catalytic activity are the predominant GO terms in the biological process, cellular component, and molecular function categories, respectively. In addition, 2093 unigenes were distributed in 107 different KEGG pathways. Furthermore, 49,280 simple sequence repeats were identified in the unigenes (>1 kilobase sequences). This is the first report on the identification of transcriptomic and microsatellite resources for C. retropictus, which opens up the possibility of exploring traits related to the adaptation and acclimatization of this species.

【 授权许可】

Unknown