Short Communication: Molecular identification of Colletotrichum gloeosporioides causing anthracnose on shallot in Bantul, Yogyakarta, Indonesia

Abstract

Abstract. Syafitri LM, Wibowo A, Widiastuti A, Subandiyah S, Harper S. 2023. Short Communication: Molecular identification of Colletotrichum gloeosporioides causing anthracnose on shallot in Bantul, Yogyakarta, Indonesia. Biodiversitas 24: 4530-4534. Anthracnose is one of the most common diseases in shallot cultivation which contributes to cause a significant production loss in Indonesia. Morphological identification of C. gloeosporioides causing anthracnose in Indonesia had been described, however there is no report on the molecular identification to confirm the pathogen species. This report is conducted to reveal species of Colletotrichum causing shallot anthracnose based on specific primer for special complex of Colletotrichum. The method used in this study was sample isolation, morphological observation and molecular identification. The symptomatic leaf sample was collected from Bantul, Yogyakarta, one of Indonesia's shallot productions, to be cultured on potato dextrose agar (PDA) medium. Morphological identification was carried out by using macroscopic and microscopic examinations. Molecular identification of the isolated fungi was amplified using specific primers for Colletotrichum gloeosporioides species complex, CgInt and ITS4. Based on molecular identification, the pathogens were identified as C. gloeosporioides Penz, which showed 98.07% percent identity with C. gloeosporioides AJ311884.1 isolate. This study elucidated that CgInt and ITS4 primers showed as a reliable primer set to be used for Colletotrichum species complex identification. The primer set was able to differ the conserved region among some Colletotrichum spp. Therefore, it is potential to be used for molecular identification. To our best knowledge, this is the first novel report on molecular identification of C. gloeosporioides causing anthracnose in shallot in Indonesia.

Etiology of Anthracnose Disease on Shallots Caused by Colletotrichum gloeosporioides

“…Karakter cendawan yang diisolasi juga memiliki kemiripan dengan temuan hasil penelitian oleh Oo et al (2018) menunjukkan bahwa C. gloeosporioides yang dikulturkan pada medium ADK memiliki bentuk konidium yang sebagian besar berbentuk silindris dengan ujung yang membulat, ukuran kondia berkisar antara 10-15.5 μm × 4-6.2 μm. Secara khas cendawan ini memiliki aservulus dan setae sebagai pembeda dengan spesies Colletotrichum lainnya yang menjadi penyebab gejala bercak pada daun tanaman (Gunawardhana et al 2010) (Syafitri et al 2023). Secara molekuler, temuan pada penelitian ini selaras dengan penelitian menggunakan primer spesifik dalam mengidentifikasi spesies cendawan.…”

A Lateral Flow-Recombinase Polymerase Amplification Method for Colletotrichum gloeosporioides Detection

“…By comparing the genomes of different species or individuals within a species, researchers can identify genes that are unique to specific taxa [13,14], which may serve as ideal targets for designing species-specific diagnostic methods. Molecular techniques, including the polymerase chain reaction (PCR) and reverse transcription quantitative PCR (RT-qPCR), are highly sensitive DNA-based methods that have been applied in C. gloeosporioides detection [20,21]. However, conventional PCR-based methods are not suitable for field detection due to the need for bulky and expensive lab equipment and complicated protocols for amplification.…”