Molecular diversity of Scutellonema bradys populations from Benin, based on ITS1 rDNA and COI mtDNA.

IF 1.5 3区 农林科学 Q3 PLANT SCIENCES
Tropical Plant Pathology Pub Date : 2018-01-01 Epub Date: 2018-05-10 DOI:10.1007/s40858-018-0221-5
Sètondji Alban Paterne Etchiha Afoha, Antoine Affokpon, Lieven Waeyenberge, Nancy de Sutter, Clément Agbangla, Alexandre Dansi, Daniel L Coyne, Nicole Viaene
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引用次数: 0

Abstract

In Benin, yam production continues to face numerous production constraints, including yield and quality reduction by Scutellonema bradys. Implementation of efficient management techniques against this pest requires an improved understanding, including at the molecular level, of the pest. The current study aimed at identifying the Scutellonema spp. associated with yam in Benin and investigating the phylogenetic relationships between populations. Nematodes of the genus Scutellonema were obtained from tubers exhibiting external dry rot symptoms. DNA was extracted from nematodes belonging to 138 populations collected from 49 fields from 29 villages. For 51 of these populations, both the ITS1 and COI regions could be amplified via PCR, sequenced, compared with available sequences in the NCBI database and were identified as S. bradys. Maximum likelihood was used to construct 60% consensus phylogenetic trees based on 51 sequences. This phylogenetic analysis did not reveal any genetic separation between populations by cultivar, village, cropping system nor by agroecological zone. Neither could any subgroups within S. bradys be separated, indicating that no subspecies were present. An earlier published species-specific primer set was verified with the DNA of the 51 sequences and was considered a reliable and rapid method for S. bradys identification.

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基于 ITS1 rDNA 和 COI mtDNA 的贝宁 Scutellonema bradys 种群的分子多样性。
在贝宁,山药生产仍然面临许多生产制约因素,包括布氏黄粉虫(Scutellonema bradys)造成的产量和质量下降。要针对这种害虫实施有效的管理技术,就必须加深对这种害虫的了解,包括分子水平的了解。目前的研究旨在确定与贝宁山药相关的 Scutellonema 属,并调查种群之间的系统发育关系。研究人员从表现出外部干腐症状的块茎中获取了 Scutellonema 属线虫。从 29 个村庄 49 块田地中采集的 138 个种群的线虫中提取了 DNA。其中 51 个种群的 ITS1 和 COI 区域均可通过 PCR 扩增、测序,并与 NCBI 数据库中的可用序列进行比较,确定为 S. bradys。在 51 个序列的基础上,使用最大似然法构建了 60% 的共识系统发生树。该系统发育分析没有发现任何按栽培品种、村庄、耕作制度或农业生态区域划分的种群遗传分离现象。也无法在 S. bradys 中分离出任何亚群,这表明不存在亚种。早先发表的一套物种特异性引物与 51 个序列的 DNA 进行了验证,被认为是一种可靠而快速的 S. bradys 鉴定方法。
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来源期刊
Tropical Plant Pathology
Tropical Plant Pathology PLANT SCIENCES-
自引率
4.00%
发文量
61
期刊介绍: Tropical Plant Pathology is an international journal devoted to publishing a wide range of research on fundamental and applied aspects of plant diseases of concern to agricultural, forest and ornamental crops from tropical and subtropical environments.  Submissions must report original research that provides new insights into the etiology and epidemiology of plant disease as well as population biology of plant pathogens, host-pathogen interactions, physiological and molecular plant pathology, and strategies to promote crop protection. The journal considers for publication: original articles, short communications, reviews and letters to the editor. For more details please check the submission guidelines. Founded in 1976, the journal is the official publication of the Brazilian Phytopathology Society.
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