The first draft genome of Picrorhiza kurrooa, an endangered medicinal herb from Himalayas

Author:

Sharma Tanvi,Sharma Nitesh Kumar,Kumar Prakash,Panzade Ganesh,Rana Tanuja,Swarnkar Mohit Kumar,Singh Anil Kumar,Singh Dharam,Shankar Ravi,Kumar Sanjay

Abstract

AbstractPicrorhiza kurrooa is an endangered medicinal herb which is distributed across the Himalayan region at an altitude between 3000–5000 m above mean sea level. The medicinal properties of P. kurrooa are attributed to monoterpenoid picrosides present in leaf, rhizome and root of the plant. However, no genomic information is currently available for P. kurrooa, which limits our understanding about its molecular systems and associated responses. The present study brings the first assembled draft genome of P. kurrooa by using 227 Gb of raw data generated by Illumina and PacBio RS II sequencing platforms. The assembled genome has a size of n = ~ 1.7 Gb with 12,924 scaffolds. Four pronged assembly quality validations studies, including experimentally reported ESTs mapping and directed sequencing of the assembled contigs, confirmed high reliability of the assembly. About 76% of the genome is covered by complex repeats alone. Annotation revealed 24,798 protein coding and 9789 non-coding genes. Using the assembled genome, a total of 710 miRNAs were discovered, many of which were found responsible for molecular response against temperature changes. The miRNAs and targets were validated experimentally. The availability of draft genome sequence will aid in genetic improvement and conservation of P. kurrooa. Also, this study provided an efficient approach for assembling complex genomes while dealing with repeats when regular assemblers failed to progress due to repeats.

Funder

Indian Council of Medical Research

Council of Scientific and Industrial Research, India

Indian Council of Agricultural Research

Department of Science and Technology, Ministry of Science and Technology, India

Publisher

Springer Science and Business Media LLC

Subject

Multidisciplinary

Reference93 articles.

1. Ansari, R. A. et al. Hepatoprotective activity of kutkin—The iridoid glycoside mixture of Picrorhiza kurrooa. Indian J. Med. Res. 87, 401–404 (1988).

2. Chander, R. et al. Evaluation of hepatoprotective activity of picroliv (from Picrorhiza kurroa) in Mastomys natalensis infected with Plasmodium berghei. Indian J. Med. Res. 92, 34–37 (1990).

3. Singh, H., Gahlan, P., Dutt, S., Ahuja, P. S. & Kumar, S. Why uproot Picrorhiza kurrooa, an endangered medicinal herb?. Curr. Sci. 100, 1055–1059 (2011).

4. Bhandari, P. et al. Stability-indicating LC–PDA method for determination of picrosides in hepatoprotective indian herbal preparations of Picrorhiza kurroa. Chroma 69, 221–227 (2009).

5. Shitiz, K., Pandit, S., Chauhan, R. S. & Sood, H. Picrosides content in the rhizomes of Picrorhiza kurroa Royle ex. Benth. traded for herbal drugs in the markets of North India. Int. J. Med. Aromat. Plants. 3, 226–233 (2013).

同舟云学术

1.学者识别学者识别

2.学术分析学术分析

3.人才评估人才评估

"同舟云学术"是以全球学者为主线,采集、加工和组织学术论文而形成的新型学术文献查询和分析系统,可以对全球学者进行文献检索和人才价值评估。用户可以通过关注某些学科领域的顶尖人物而持续追踪该领域的学科进展和研究前沿。经过近期的数据扩容,当前同舟云学术共收录了国内外主流学术期刊6万余种,收集的期刊论文及会议论文总量共计约1.5亿篇,并以每天添加12000余篇中外论文的速度递增。我们也可以为用户提供个性化、定制化的学者数据。欢迎来电咨询!咨询电话:010-8811{复制后删除}0370

www.globalauthorid.com

TOP

Copyright © 2019-2024 北京同舟云网络信息技术有限公司
京公网安备11010802033243号  京ICP备18003416号-3