ACTA AGRICULTURAE BOREALI-SINICA ›› 2019, Vol. 34 ›› Issue (6): 74-81. doi: 10.7668/hbnxb.201751606

• Crop Genetics·Germplasm Resources·Biotechnology • Previous Articles     Next Articles

Transcriptome Analysis of Bolboschoenus planiculmis Using Mixed Samples from Different Tissues

NING Yu1,2, ZHENG Yanchao3, WU Gaojie1,2, WANG Yifei1,2,4, ZHANG Manyin1,4,5   

  1. 1. Institute of Wetland Research, Chinese Academy of Forestry, Beijing 100091, China;
    2. Sichuan Zoige Alpine Wetland National Ecosystem Research Station, Zoige 624500, China;
    3. East China Forestry Inventory and Planning Institute, State Forestry Administration, Hangzhou 310019, China;
    4. Key Laboratory of Wetland Services and Restoration, Beijing 100091, China;
    5. National Ecosystem Research Station of Hengshui Wetland, Hengshui 053000, China
  • Received:2019-08-20 Published:2019-12-28

Abstract: Bolboschoenus planiculmis is a typical rice paddy weed.This research aims to supplement the transcriptome information of this species. Based on high-throughput sequencing technology, we acquired and analyzed the transcriptome of B. planiculmis on Illumina Solexa HiSeq 2000 platform, using a compounded sample of stem, leave, rhizome and tuber. In total, 59 788 Unigene with an average length of 842 bp and N50 of 1 402 bp were obtained by de novo assembly. Aquired Unigene sequences were compared with five main gene data base(NR, Swiss-Prot, KEGG, GO, KOG). 35 221 Unigene have been annotated, 58.91% of the total. 9 698 SSR site were obtained from 12 823 Unigene, of which 2 base and 3 base motif compose 95.93% of total amount. According to KEGG analysis, 13 141 Unigenes were involved in 291 metabolic pathways. 60 Unigene were found to be functional in starch synthesis while 14 Unigene were found to related to rhizome elongation. The gibberellin related genes, together with ribosome pathway, reflect the expanding trend of the below ground rhizome system and the urgent demands of energy. The genes involved in starch synthesis indicate that nutrients deposition begins at the early stage of the expansion. These findings provide basis for further research on the regulating mechanism of below ground network, or provide reference for practices such as weed management and wetland protection.

Key words: Bolboschoenus planiculmis, High-throughput sequencing, Transcriptome, Gene annotation, SSR

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Cite this article

NING Yu, ZHENG Yanchao, WU Gaojie, WANG Yifei, ZHANG Manyin. Transcriptome Analysis of Bolboschoenus planiculmis Using Mixed Samples from Different Tissues[J]. ACTA AGRICULTURAE BOREALI-SINICA, 2019, 34(6): 74-81. doi: 10.7668/hbnxb.201751606.

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