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Depicting the richest source of pathogen linked miscellaneous gene expression in orphan crops by Nanopore.

Projektbeschreibung

Warum eine bestimmte Pfefferart gegenüber Krankheiten resistent ist

Die Pfefferart Piper colubrinum, die als Heilmittel gegen Moderhinke eingesetzt wird, ist eine wilde Verwandte des kultivierten schwarzen Pfeffers, Piper nigrum. Anders als die wertvolle Gewürzpflanze P. nigrum ist P. colubrinum gegenüber Krankheiten resistent. Zu beiden Arten liegen bisher keine ausreichenden validierten Genomsequenzdaten vor. Zudem ist der genaue Grund für die Krankheitsresistenz von P. colubrinum noch völlig unbekannt. Um Antworten zu finden, setzt das EU-finanzierte Projekt OCNANO auf MinION, ein tragbares echtzeitfähiges Gerät zur DNS- und RNS-Sequenzierung. Insbesondere wird es damit die Transkriptome beider Piper-Arten annotieren. Anhand einer Array-Aufnahme wird es zudem die Pathogen-Genexpression bei einem Befall identifizieren. Außerdem wird das Projekt Analysen der Genexpression von P. nigrum und P. colubrinum bei einem Befall vergleichen.

Ziel

Modern agriculture is dominated by crops noticeable for intense food supply leaving behind a class of neglected or orphan crops. Relatively poorly studied orphan crops have the potential to diversify the human diet, increase agricultural food productivity levels and enable more sustainable and resilient agro- and horti-food systems. Here, we focus on two such crops-Piper nigrum (black pepper) the most important spice traded internationally and Piper colubrinum, a wild relative of black pepper introduced from Brazil, which is the only known source of resistance to diseases such as foot rot or quick wilt caused by an Oomycete Phytophthora capsici. Negligible genome sequence data exists for either species. Although agricultural practices for making P. nigrum resistant to this Oomycete by interspecific hybridization with P.colubrinum are well known, no effective strategies have been generated yet. The exact reason behind the resistance of P.colubrinum is not yet understood, thus leaving open a fertile area of investigation.With this background, OCNANO aims to reveal the basis of pathogen resistance that distinguish resistant from susceptible species of Piper. We will employ Oxford nanopore MinION technology to address this issue with three specific objectives:(1) Annotate the transcriptomes of P.nigrum and P. colubrinum; (2) Identify pathogen gene expression during infection using a capture array; (3) Comparative analysis of P. nigrum and P. colubrinum gene expression during infection. Innovative strategies like nanopore in combination with other sequencing approaches can transform annotation and enable the richest understanding of gene expression during pathogen attack. Research progressing towards the rescue of such orphan crops from their environmental stresses, by applying leading edge technologies, can further enhance crop productivity, food security, knowledge based economy and society and contribute to the achievement of several UN Sustainable Development Goals.

Koordinator

UNIVERSITY OF DUNDEE
Netto-EU-Beitrag
€ 224 933,76
Adresse
Nethergate
DD1 4HN Dundee
Vereinigtes Königreich

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Region
Scotland Eastern Scotland Angus and Dundee City
Aktivitätstyp
Higher or Secondary Education Establishments
Links
Gesamtkosten
€ 224 933,76