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Chromosome-level genome assembly of the bean bug Riptortus pedestris
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  • Hai-Jian Huang,
  • Yu-Xuan Ye,
  • Zhuang-Xin Ye,
  • Xiao-Tian Yan,
  • Xin Wang,
  • Zhong-Yan Wei,
  • Jian-Ping Chen,
  • Jun-Min Li,
  • Zong-Tao Sun,
  • Chuan-Xi Zhang
Hai-Jian Huang
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Yu-Xuan Ye
Zhejiang University
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Zhuang-Xin Ye
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Xiao-Tian Yan
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Zhong-Yan Wei
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Jian-Ping Chen
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Jun-Min Li
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Zong-Tao Sun
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Chuan-Xi Zhang
Zhejiang University
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Abstract

The bean bug (Riptortus pedestris) causes great economic losses of soybeans by piercing and sucking pods and seeds. Although R. pedestris has become the focus of numerous studies associated with insect–microbe interactions, plant–insect interactions, and pesticide resistance, a lack of genomic resources has limited deeper insights. In this study, we report the first R. pedestris genome at the chromosomal level using PacBio, Illumina, and Hi-C technologies. The assembled genome was 1.193 Gb in size with a contig N50 of 13.97 Mb. More than 95.7% of the total genome bases were successfully anchored to 6 unique chromosomes, with the scaffold N50 reaching 181.34 Mb. Genome resequencing of male and female individuals and chromosomic staining demonstrated that the sex chromosome system of R. pedestris is XO, and the shortest chromosome is the X chromosome. In total, 21,562 protein-coding genes were predicted, 21,320 of which were validated as being expressed in different tissues or different developmental stages. Evolutionary analysis demonstrated that R. pedestris and Oncopeltus fasciatus formed a sister group and split ∼35 million years ago. Additionally, a 5.04 Mb complete genome of symbiotic Serratia marcescens Rip1 was assembled, and the virulence factors that account for successful colonization in the host midgut were identified. The high-quality R. pedestris genome provides a valuable resource for further research, as well as for the pest management of bug pests.

Peer review status:ACCEPTED

06 Nov 2020Submitted to Molecular Ecology Resources
11 Dec 2020Submission Checks Completed
11 Dec 2020Assigned to Editor
13 Dec 2020Reviewer(s) Assigned
07 Feb 2021Review(s) Completed, Editorial Evaluation Pending
08 Feb 2021Editorial Decision: Revise Minor
25 Apr 2021Review(s) Completed, Editorial Evaluation Pending
25 Apr 20211st Revision Received
27 Apr 2021Reviewer(s) Assigned
13 May 2021Editorial Decision: Revise Minor
17 May 2021Review(s) Completed, Editorial Evaluation Pending
17 May 20212nd Revision Received
20 May 2021Editorial Decision: Accept