Molecular Characterisation of 28S Region of Xiphinema index (Dorylaimida: Longidoridae) from Türkiye

Öz

Xiphinema index (Dorylaimida: Longidoridae) is a virus vector nematode and is highly distributed worldwide. In this study, the DNA of the Xiphinema index nematode was subject to Polymerase chain reaction (PCR) using D2A and D3B primers to analyse the 28S region. The resulting sequence data were then subjected to a BLAST check in order to ascertain the similarity to other species. The X. index population in the study was recovered from a fig (Ficus carica L.) plantation in Tekirdağ, Türkiye. The DNA of specimens was amplified with D2A and D3B primers to perform phylogenetic analysis. At first, the nematodes were identified morphologically and then molecularly. D2A and D3B primers were used in the study. After PCR, amplified DNA was sequenced for molecular purposes, and data from the D2-D3 region of the 28S rRNA molecule of X. index were subjected to GenBank sequence comparison using BLAST (Basic Local Alignment Search Tool). The local sequence submitted to GenBank with accession number PQ165044 showed identity (98.26-99.81%) with several Xiphinema index hits. Local X. index sequence clustered close with Spanish (HM921406, HM921400, HM921399, HM921398, HM921363, HM921349, HM921347 and HM921364) and Crete/Greece (KJ802882) sequences in Neighbor-joining and Maximum likelihood analysis comparing the local sequence, 16 different X. index accessions and 13 accessions from various species.

Anahtar Kelimeler

• Dagger nematode
• 28S rRNA
• Ficus carica L.
• Türkiye

Destekleyen Kurum

yok

Proje Numarası

yok

Türkiye'de Xiphinema index (Dorylaimida: Longidoridae)’in 28S Bölgesinin Moleküler Karakterizasyonu

Öz

Xiphinema index (Dorylaimida: Longidoridae) virüs vektörü nematod türü olup dünya genelinde oldukça yaygındır. Bu çalışmada, Xiphinema index nematodunun DNA'sı ile, 28S bölgesini analiz etmek için D2A ve D3B primerleri kullanılarak Polimeraz Zincir Reaksiyonu (PCR) yapılmıştır. Elde edilen sekans verileri daha sonra diğer türlerle benzerliklerini belirlemek için BLAST analizine tabi tutulmuştur. Çalışmada X. index popülasyonu, Türkiye, Tekirdağ'daki bir incir plantasyonundan (Ficus carica L.) toplanmış, ve türün filogenetik analizini gerçekleştirmek için DNA'sı D2A ve D3B primerleri ile amplifiye edilmiştir. Nematodlar önce morfolojik olarak, daha sonra moleküler olarak tanımlanmıştır. Moleküler çalışmalarda D2A ve D3B primerleri kullanılmıştır. PCR sonrası amplifike yapılan nematod DNA’sı sekansa tabi tutulmuştur ve X. index’in 28S rRNA molekülünün D2-D3 bölgesinden gelen veriler BLAST (Basic Local Alignment Search Tool) kullanılarak GenBank dizi karşılaştırmasına tabi tutulmuştur.Yerel sekans PQ165044 aksesyon numarası ile GenBank’a kaydedilmiş ve diğer Xiphinema index türleri ile (% 98.26 – 99.81) benzerlik göstermiştir. Yerel X. index dizisi, 16 farklı X. index aksesyonu ve farklı Xihpinema türlerine ait 13 aksesyon ile yapılan Neighbor-joining ve Maximum likelihood analizlerinde yerel sekans, İspanya (HM921406, HM921400, HM921399, HM921398, HM921363, HM921349, HM921347 ve HM921364 ve Girit/Yunanistan sekanslarıyla aynı dalda kümelenmiştir.

Anahtar Kelimeler

• Kamalı nematod
• 28S rRNA
• Ficus carica L.
• Türkiye

Proje Numarası

yok

Kaynakça

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