China Animal Husbandry and Veterinary Medicine ›› 2022, Vol. 49 ›› Issue (5): 1610-1620.doi: 10.16431/j.cnki.1671-7236.2022.05.002

• Biotechnology • Previous Articles     Next Articles

Sequencing Analysis of Full-length Transcriptome of Abomasum in Yak

XIE Shuqiong1,2, MA Shilong1,3, TANG Jiao1,2, LIU Yili1,3, JIANG Mingfeng1,3   

  1. 1. Key Laboratory of Qinghai-Tibetan Plateau Animal Genetic Resource Reservation and Utilization, Ministry of Education and Sichuan Province, Southwest Minzu University, Chengdu 610041, China;
    2. Institute of Tibetan Plateau Research, Southwest Minzu University, Chengdu 610041, China;
    3. College of Animal and Veterinary Sciences, Southwest Minzu University, Chengdu 610041, China
  • Received:2021-12-07 Online:2022-05-05 Published:2022-04-29

Abstract: 【Objective】 In order to obtain the full-length transcriptome database of abomasum in yak (Bos grunniens),the functional genes of abomasum of yak were deeply excavated.【Method】 The full-length transcriptome of abomasum of adult yak was sequenced by single molecular real time (SMRT) sequencing technology using high-throughput sequencing PacBio Sequel high-throughput sequencing system.The original data were quality controlled and de redundant analysis,and then compared with the reference genome to obtain filtered non repetitive sequences (Unigenes).A variety of bioinformatics software were used to compare the full-length transcriptome data of abomasum in yak for functional annotation,transcription factor annotation,coding region prediction,simple sequence repeats (SSR) analysis and alternative splices analysis.【Result】 A total of 14 467 420 subsequences were obtained by sequencing,with an average length of 3 344.23 bp.296 840 CCS sequences and 277 402 FLNC sequences were obtained by quality control.After filtering and de redundancy,the reference genome was compared,and 8 556 Unigenes were finally obtained.By comparing with NR,Swiss-Prot,KEGG,KOG,eggNOG,GO and Pfam databases,Unigenes were annotated,of which 8 544 Unigenes were annotated in NR database.Swiss-Prot database annotated 8 475 Unigenes.The KEGG database annotated 1 721 unigenes.The KOG database annotated 6 572 Unigenes.The eggNOG database annotated 8 491 Unigenes.GO database annotated 7 725 Unigenes;The Pfam database annotated 8 162 Unigenes.In addition,943 transcription factors,8 544 CDS fragments,3 596 SSR sites and 1 825 alternative splicing events were identified or predicted.【Conclusion】 In this study,reliable full-length transcriptome data of yak abomasum were obtained,it could provide data support for the further study of the biological characteristics,related metabolic pathways,signal pathways and molecular mechanisms of abomasum in yak.

Key words: yak; abomasum; full-length transcriptome; the third generation sequencing; functional notes

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