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Title: Draft genome of the most devastating insect pest of coffee worldwide: the coffee berry borer, Hypothenemus hampei

Abstract

The coffee berry borer, Hypothenemus hampei, is the most economically important insect pest of coffee worldwide. We present an analysis of the draft genome of the coffee berry borer, the third genome for a Coleopteran species. The genome size is ca. 163 Mb with 19,222 predicted protein-coding genes. Analysis was focused on genes involved in primary digestion as well as gene families involved in detoxification of plant defense molecules and insecticides, such as carboxylesterases, cytochrome P450, gluthathione S-transferases, ATP-binding cassette transporters, and a gene that confers resistance to the insecticide dieldrin. A broad range of enzymes capable of degrading complex polysaccharides were identified. We also evaluated the pathogen defense system and found homologs to antimicrobial genes reported in the Drosophila genome. Ten cases of horizontal gene transfer were identified with evidence for expression, integration into the H. hampei genome, and phylogenetic evidence that the sequences are more closely related to bacterial rather than eukaryotic genes. We find the draft genome analysis broadly expands our knowledge on the biology of a devastating tropical insect pest and suggests new pest management strategies.

Authors:
 [1];  [2];  [2];  [2];  [3];  [4];  [4];  [5];  [6];  [3]
  1. U.S. Department of Agriculture, Beltsville, MD (United States). Sustainable Perennial Crops Laboratory
  2. New York Univ. School of Medicine, New York, NY (United States)
  3. King Abdullah University of Science and Technology, Thuwal-Jeddah (Saudi Arabia)
  4. Lawrence Berkeley National Lab. (LBNL), Berkeley, CA (United States)
  5. Colegio de la Frontera Sur (ECOSUR), Tapachula, Chiapas (Mexico)
  6. U.S. Department of Agriculture, Peoria, IL (United States). Agricultural Research Service, National Center for Agricultural Utilization Research
Publication Date:
Research Org.:
Lawrence Berkeley National Lab. (LBNL), Berkeley, CA (United States)
Sponsoring Org.:
USDOE
OSTI Identifier:
1256057
Grant/Contract Number:  
AC02-05CH11231; AC02-05CH1121231
Resource Type:
Accepted Manuscript
Journal Name:
Scientific Reports
Additional Journal Information:
Journal Volume: 5; Journal ID: ISSN 2045-2322
Publisher:
Nature Publishing Group
Country of Publication:
United States
Language:
English
Subject:
59 BASIC BIOLOGICAL SCIENCES

Citation Formats

Vega, Fernando E., Brown, Stuart M., Chen, Hao, Shen, Eric, Nair, Mridul B., Ceja-Navarro, Javier A., Brodie, Eoin L., Infante, Francisco, Dowd, Patrick F., and Pain, Arnab. Draft genome of the most devastating insect pest of coffee worldwide: the coffee berry borer, Hypothenemus hampei. United States: N. p., 2015. Web. doi:10.1038/srep12525.
Vega, Fernando E., Brown, Stuart M., Chen, Hao, Shen, Eric, Nair, Mridul B., Ceja-Navarro, Javier A., Brodie, Eoin L., Infante, Francisco, Dowd, Patrick F., & Pain, Arnab. Draft genome of the most devastating insect pest of coffee worldwide: the coffee berry borer, Hypothenemus hampei. United States. doi:10.1038/srep12525.
Vega, Fernando E., Brown, Stuart M., Chen, Hao, Shen, Eric, Nair, Mridul B., Ceja-Navarro, Javier A., Brodie, Eoin L., Infante, Francisco, Dowd, Patrick F., and Pain, Arnab. Fri . "Draft genome of the most devastating insect pest of coffee worldwide: the coffee berry borer, Hypothenemus hampei". United States. doi:10.1038/srep12525. https://www.osti.gov/servlets/purl/1256057.
@article{osti_1256057,
title = {Draft genome of the most devastating insect pest of coffee worldwide: the coffee berry borer, Hypothenemus hampei},
author = {Vega, Fernando E. and Brown, Stuart M. and Chen, Hao and Shen, Eric and Nair, Mridul B. and Ceja-Navarro, Javier A. and Brodie, Eoin L. and Infante, Francisco and Dowd, Patrick F. and Pain, Arnab},
abstractNote = {The coffee berry borer, Hypothenemus hampei, is the most economically important insect pest of coffee worldwide. We present an analysis of the draft genome of the coffee berry borer, the third genome for a Coleopteran species. The genome size is ca. 163 Mb with 19,222 predicted protein-coding genes. Analysis was focused on genes involved in primary digestion as well as gene families involved in detoxification of plant defense molecules and insecticides, such as carboxylesterases, cytochrome P450, gluthathione S-transferases, ATP-binding cassette transporters, and a gene that confers resistance to the insecticide dieldrin. A broad range of enzymes capable of degrading complex polysaccharides were identified. We also evaluated the pathogen defense system and found homologs to antimicrobial genes reported in the Drosophila genome. Ten cases of horizontal gene transfer were identified with evidence for expression, integration into the H. hampei genome, and phylogenetic evidence that the sequences are more closely related to bacterial rather than eukaryotic genes. We find the draft genome analysis broadly expands our knowledge on the biology of a devastating tropical insect pest and suggests new pest management strategies.},
doi = {10.1038/srep12525},
journal = {Scientific Reports},
number = ,
volume = 5,
place = {United States},
year = {2015},
month = {7}
}

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Cited by: 11 works
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