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Phylogenetic analysis and genetic diversity of Colletotrichum falcatum isolates causing sugarcane red rot disease in Bangladesh

Colletotrichum falcatum Went causes red rot disease in sugarcane farming in the tropical and sub-tropical regions. This disease causes significant economic loss to the sugarcane production industry. Successful disease management strategies depend on understanding the evolutionary relationship betwee...

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Main Authors: Hossain, Md Imam, Ahmad, Khairulmazmi, Vadamalai, Ganesan, Siddiqui, Yasmeen, Saad, Norsazilawati, Ahmed, Osumanu Haruna, Mohd Hata, Erneeza, Adzmi, Fariz, Rashed, Osamah, Rahman, Muhammad Ziaur, Kutawa, Abdulaziz Bashir
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Published: MDPI AG 2021
Online Access:http://psasir.upm.edu.my/id/eprint/94574/
https://www.mdpi.com/2079-7737/10/9/862
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spelling my.upm.eprints.945742022-12-05T06:08:26Z http://psasir.upm.edu.my/id/eprint/94574/ Phylogenetic analysis and genetic diversity of Colletotrichum falcatum isolates causing sugarcane red rot disease in Bangladesh Hossain, Md Imam Ahmad, Khairulmazmi Vadamalai, Ganesan Siddiqui, Yasmeen Saad, Norsazilawati Ahmed, Osumanu Haruna Mohd Hata, Erneeza Adzmi, Fariz Rashed, Osamah Rahman, Muhammad Ziaur Kutawa, Abdulaziz Bashir Colletotrichum falcatum Went causes red rot disease in sugarcane farming in the tropical and sub-tropical regions. This disease causes significant economic loss to the sugarcane production industry. Successful disease management strategies depend on understanding the evolutionary relationship between pathogens, genetic diversity, and population structure, particularly at the intra-specific level. Forty-one isolates of C. falcatum were collected from different sugarcane farms across Bangladesh for molecular identification, phylogeny and genetic diversity study. The four genes namely, ITS-rDNA, β-tubulin, Actin and GAPDH sequences were conducted. All the 41 C. falcatum isolates showed a 99–100% similarity index to the conserved gene sequences in the GenBank database. The phylogram of the four genes revealed that C. falcatum isolates of Bangladesh clustered in the same clade and no distinct geographical structuring were evident within the clade. The four gene sequences revealed that C. falcatum isolates from Bangladesh differed from other countries´ isolates because of nucleotides substitution at different loci. The genetic structure of C. falcatum isolates were determined using ISSR marker generated 404 polymorphic loci from 10 selected markers. The percentage of polymorphic loci was 99.01. The genetic variability at species level was slightly higher than at population level. Total mean gene diversity at the species level was 0.1732 whereas at population level it was 0.1521. The cluster analysis divided 41 isolates into four main genetic groups and the principal component analysis was consistent with cluster analysis. To the best of our knowledge, this is the first finding on characterizing C. falcatum isolates infesting sugarcane in Bangladesh. The results of this present study provide important baseline information vis a vis C. falcatum phylogeny analysis and genetic diversity study. MDPI AG 2021-09 Article PeerReviewed Hossain, Md Imam and Ahmad, Khairulmazmi and Vadamalai, Ganesan and Siddiqui, Yasmeen and Saad, Norsazilawati and Ahmed, Osumanu Haruna and Mohd Hata, Erneeza and Adzmi, Fariz and Rashed, Osamah and Rahman, Muhammad Ziaur and Kutawa, Abdulaziz Bashir (2021) Phylogenetic analysis and genetic diversity of Colletotrichum falcatum isolates causing sugarcane red rot disease in Bangladesh. Biology, 10 (9). art. no. 862. pp. 1-25. ISSN 2079-7737 https://www.mdpi.com/2079-7737/10/9/862 10.3390/biology10090862
institution Universiti Putra Malaysia
building UPM Library
collection Institutional Repository
continent Asia
country Malaysia
content_provider Universiti Putra Malaysia
content_source UPM Institutional Repository
url_provider http://psasir.upm.edu.my/
description Colletotrichum falcatum Went causes red rot disease in sugarcane farming in the tropical and sub-tropical regions. This disease causes significant economic loss to the sugarcane production industry. Successful disease management strategies depend on understanding the evolutionary relationship between pathogens, genetic diversity, and population structure, particularly at the intra-specific level. Forty-one isolates of C. falcatum were collected from different sugarcane farms across Bangladesh for molecular identification, phylogeny and genetic diversity study. The four genes namely, ITS-rDNA, β-tubulin, Actin and GAPDH sequences were conducted. All the 41 C. falcatum isolates showed a 99–100% similarity index to the conserved gene sequences in the GenBank database. The phylogram of the four genes revealed that C. falcatum isolates of Bangladesh clustered in the same clade and no distinct geographical structuring were evident within the clade. The four gene sequences revealed that C. falcatum isolates from Bangladesh differed from other countries´ isolates because of nucleotides substitution at different loci. The genetic structure of C. falcatum isolates were determined using ISSR marker generated 404 polymorphic loci from 10 selected markers. The percentage of polymorphic loci was 99.01. The genetic variability at species level was slightly higher than at population level. Total mean gene diversity at the species level was 0.1732 whereas at population level it was 0.1521. The cluster analysis divided 41 isolates into four main genetic groups and the principal component analysis was consistent with cluster analysis. To the best of our knowledge, this is the first finding on characterizing C. falcatum isolates infesting sugarcane in Bangladesh. The results of this present study provide important baseline information vis a vis C. falcatum phylogeny analysis and genetic diversity study.
format Article
author Hossain, Md Imam
Ahmad, Khairulmazmi
Vadamalai, Ganesan
Siddiqui, Yasmeen
Saad, Norsazilawati
Ahmed, Osumanu Haruna
Mohd Hata, Erneeza
Adzmi, Fariz
Rashed, Osamah
Rahman, Muhammad Ziaur
Kutawa, Abdulaziz Bashir
spellingShingle Hossain, Md Imam
Ahmad, Khairulmazmi
Vadamalai, Ganesan
Siddiqui, Yasmeen
Saad, Norsazilawati
Ahmed, Osumanu Haruna
Mohd Hata, Erneeza
Adzmi, Fariz
Rashed, Osamah
Rahman, Muhammad Ziaur
Kutawa, Abdulaziz Bashir
Phylogenetic analysis and genetic diversity of Colletotrichum falcatum isolates causing sugarcane red rot disease in Bangladesh
author_facet Hossain, Md Imam
Ahmad, Khairulmazmi
Vadamalai, Ganesan
Siddiqui, Yasmeen
Saad, Norsazilawati
Ahmed, Osumanu Haruna
Mohd Hata, Erneeza
Adzmi, Fariz
Rashed, Osamah
Rahman, Muhammad Ziaur
Kutawa, Abdulaziz Bashir
author_sort Hossain, Md Imam
title Phylogenetic analysis and genetic diversity of Colletotrichum falcatum isolates causing sugarcane red rot disease in Bangladesh
title_short Phylogenetic analysis and genetic diversity of Colletotrichum falcatum isolates causing sugarcane red rot disease in Bangladesh
title_full Phylogenetic analysis and genetic diversity of Colletotrichum falcatum isolates causing sugarcane red rot disease in Bangladesh
title_fullStr Phylogenetic analysis and genetic diversity of Colletotrichum falcatum isolates causing sugarcane red rot disease in Bangladesh
title_full_unstemmed Phylogenetic analysis and genetic diversity of Colletotrichum falcatum isolates causing sugarcane red rot disease in Bangladesh
title_sort phylogenetic analysis and genetic diversity of colletotrichum falcatum isolates causing sugarcane red rot disease in bangladesh
publisher MDPI AG
publishDate 2021
url http://psasir.upm.edu.my/id/eprint/94574/
https://www.mdpi.com/2079-7737/10/9/862
_version_ 1753789927526498304
score 13.211869

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