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

• Published in: Genes 2016-07, Vol.7 (7), p.35
• Main Authors: Park, So Young, Patnaik, Bharat Bhusan, Kang, Se Won, Hwang, Hee-Ju, Chung, Jong Min, Song, Dae Kwon, Sang, Min Kyu, Patnaik, Hongray Howrelia, Lee, Jae Bong, Noh, Mi Young, Kim, Changmu, Kim, Soonok, Park, Hong Seog, Lee, Jun Sang, Han, Yeon Soo, Lee, Yong Seok
• Format: Article
• Language: English
• ISSN: 2073-4425; 2073-4425
• DOI: 10.3390/genes7070035

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.