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Acta Agron Sin ›› 2017, Vol. 43 ›› Issue (06): 862-874.doi: 10.3724/SP.J.1006.2017.00862

• CROP GENETICS & BREEDING · GERMPLASM RESOURCES · MOLECULAR GENETICS • Previous Articles     Next Articles

Analysis of Internal Transcribed Spacers (ITS) Sequences and Phylogenetics of Main Bast Fiber Crops

ZHANG Li-Lan1,2,WANG Jun1,WAN Xue-Bei1,2,XU Yi1,2,ZHANG Lie-Mei1,FANG Ping-Ping1,QI Jian-Min1,*,ZHANG Li-Wu1,2,*   

  1. 1 College of Crop Science / Key Laboratory for Genetics, Breeding and Multiple Utilization of Crops of Ministry of Education / Fujian Key Laboratory for Crop Breeding by Design; 2 Center for Genomics and Biotechnology of Haixia Institute of Science and Technology, Fujian Agriculture and Forestry University, Fuzhou 350002, China
  • Received:2016-09-30 Revised:2017-03-02 Online:2017-06-12 Published:2017-03-13
  • Contact: 祁建民, E-mail: qijm863@163.com; 张立武, E-mail: lwzhang@fafu.edu.cn, zhang_liwu@hotmail.com E-mail:1204549467@qq.com
  • Supported by:

    This study was supported by the Doctoral Program of Higher Education of China (20133515120002), the Introduction Breeding and Varieties Demonstration of Featured Crops between China and Benin (2015I0001), the Distinguished Young Research Fund in Fujian Agriculture and Forestry University (xjq201401), the China Agriculture Research System (nycytx-19-E06), the Experiment Station of Jute and Kenaf in Southeast China (Nongkejiaofa 2011), and the Undergraduate Innovation Training Program in Fujian Agriculture and Forestry University.

Abstract:

Sequences comparison of ribosomal internal transcribed spacer (ITS) could provide evidence for the systematic classification and evolutionary relationships of main bast fiber crops and other species. In this study, the ITS sequences of 32 main bast fiber crops and 11 other species with reference genome sequences were obtained from cloning or GenBank database. The whole gene length, G+C content, and the difference of homologous percentage were analysed using MEGE software. The ITS average lengths of sequences from jute (Corchorus), kenaf (Hibiscus), ramie (Boehmeria nivea) and flax (Linum usitatissimum) were 963, 939, 658, and 686 bp, respectively. And the corresponding G+C contents were 57.87%, 58.03%, 59.05%, and 53.75%, respectively. The variation of jute (Corchorus) concentrated on a region of 220 to 386 bp, kenaf (Hibiscus) on two regions of 206 to 347 bp and 599 to 713 bp, ramie (Boehmeria nivea) on four regions of 158 to 163 bp, 193 to 199 bp, 288 to 333 bp, and 681to 688 bp, and flax (Linum usitatissimum) on five regions of 219 to 229 bp, 235 to 240 bp, 427 to 432 bp, 468 to 484 bp, and 588 to 594 bp. Phylogenetic analysis showed that jute and kenaf shared a relatively close genetic relationship while the others had a far genetic relationship, which is consistent with the relationship of traditional species classification in systematic botany. In study of comparative genomics, the genome sequecne of cotton might be regarded as a reference for kenaf or jute, and the genome sequence of Populus trichocarpa or Ricinus communis might be regarded as a reference for ramie. We deduced that the evolutionary time of kenaf, jute, ramie and flax could be roughly estimated as 33.7, 65.3, 67.5, and 90.5 million years ago, respectively, showing the longer evolution time the more variation regions of ITS in different species of bast fiber crops in the same genus.

Key words: Bast fiber crop, ITS, Systematic classification, Evolution relationship

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