De novo assembly and annotation of the juvenile tuber transcriptome of agastrodia elatahybrid by rna sequencing: Detection of ssr markers
Yükleniyor...
Dosyalar
Tarih
2020
Dergi Başlığı
Dergi ISSN
Cilt Başlığı
Yayıncı
Springer/Plenum Publishers
Erişim Hakkı
info:eu-repo/semantics/closedAccess
Özet
Gastrodia elatais a traditional Chinese herbal medicine with good therapeutic effect on various nervous and cerebrovascular diseases. In the present study, we generated 20,611,556 raw reads from the young tuber transcriptome of aG. elatahybrid (Gastrodia elata BI.f.elata x Gastrodia elata BI.f.pilifera) by using Illumina HiSeq (TM) 4000 sequencing platform. De novo assembly and bioinformatics analysis revealed 20,237,474 clean reads, including 2,529,684,250 bp that assembled into 34,323 unigenes with an average length of 695.19 bp. Among them, 24,698 (71.96%) unigenes were annotated by at least one of the Nr, Swiss-Prot, COG and KEGG databases. A total of 4236 (12.34%) unigenes were identified as candidate transcription factors, and 2007 (5.85%) unigenes were found to contain at least one single sequence repeat (SSR). Of these SSRs, AG/CT repeat motif was the most frequent, with a total of 498 (21.67%). This study will enhance our understanding about the molecular mechanism of physiological metabolism, growth and development ofG. elata, particularly abundant SSR markers will offer plenty of alternative tools for further studies about molecular genetics, molecular breeding and association analysis.
Açıklama
Anahtar Kelimeler
Gastrodia elata, Sequencing, SSR, Transcriptome, Unigenes
Kaynak
Biochemical Genetics
WoS Q Değeri
Q4
Scopus Q Değeri
Q2
Cilt
58
Sayı
6
