Changes in the core endophytic mycobiome of carrot taproots in response to crop management and genotype

Abstract Fungal endophytes can influence production and post-harvest challenges in carrot, though the identity of these microbes as well as factors affecting their composition have not yet been determined, which prevents growers from managing these organisms to improve crop performance. Consequently...

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Autores principales:	Sahar Abdelrazek, Sulbha Choudhari, Jyothi Thimmapuram, Philipp Simon, Micaela Colley, Tesfaye Mengiste, Lori Hoagland
Formato:	article
Lenguaje:	EN
Publicado:	Nature Portfolio 2020
Materias:	Medicine R Science Q
Acceso en línea:	https://doaj.org/article/46be48a384f54d189a34ab55dcd8b038
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spelling	oai:doaj.org-article:46be48a384f54d189a34ab55dcd8b0382021-12-02T19:06:33ZChanges in the core endophytic mycobiome of carrot taproots in response to crop management and genotype10.1038/s41598-020-70683-x2045-2322https://doaj.org/article/46be48a384f54d189a34ab55dcd8b0382020-08-01T00:00:00Zhttps://doi.org/10.1038/s41598-020-70683-xhttps://doaj.org/toc/2045-2322Abstract Fungal endophytes can influence production and post-harvest challenges in carrot, though the identity of these microbes as well as factors affecting their composition have not yet been determined, which prevents growers from managing these organisms to improve crop performance. Consequently, we characterized the endophytic mycobiome in the taproots of three carrot genotypes that vary in resistance to two pathogens grown in a trial comparing organic and conventional crop management using Illumina sequencing of the internal transcribed spacer (ITS) gene. A total of 1,480 individual operational taxonomic units (OTUs) were identified. Most were consistent across samples, indicating that they are part of a core mycobiome, though crop management influenced richness and diversity, likely in response to differences in soil properties. There were also differences in individual OTUs among genotypes and the nematode resistant genotype was most responsive to management system indicating that it has greater control over its endophytic mycobiome, which could potentially play a role in resistance. Members of the Ascomycota were most dominant, though the exact function of most taxa remains unclear. Future studies aimed at overcoming difficulties associated with isolating fungal endophytes are needed to identify these microbes at the species level and elucidate their specific functional roles.Sahar AbdelrazekSulbha ChoudhariJyothi ThimmapuramPhilipp SimonMicaela ColleyTesfaye MengisteLori HoaglandNature PortfolioarticleMedicineRScienceQENScientific Reports, Vol 10, Iss 1, Pp 1-14 (2020)
institution	DOAJ
collection	DOAJ
language	EN
topic	Medicine R Science Q
spellingShingle	Medicine R Science Q Sahar Abdelrazek Sulbha Choudhari Jyothi Thimmapuram Philipp Simon Micaela Colley Tesfaye Mengiste Lori Hoagland Changes in the core endophytic mycobiome of carrot taproots in response to crop management and genotype
description	Abstract Fungal endophytes can influence production and post-harvest challenges in carrot, though the identity of these microbes as well as factors affecting their composition have not yet been determined, which prevents growers from managing these organisms to improve crop performance. Consequently, we characterized the endophytic mycobiome in the taproots of three carrot genotypes that vary in resistance to two pathogens grown in a trial comparing organic and conventional crop management using Illumina sequencing of the internal transcribed spacer (ITS) gene. A total of 1,480 individual operational taxonomic units (OTUs) were identified. Most were consistent across samples, indicating that they are part of a core mycobiome, though crop management influenced richness and diversity, likely in response to differences in soil properties. There were also differences in individual OTUs among genotypes and the nematode resistant genotype was most responsive to management system indicating that it has greater control over its endophytic mycobiome, which could potentially play a role in resistance. Members of the Ascomycota were most dominant, though the exact function of most taxa remains unclear. Future studies aimed at overcoming difficulties associated with isolating fungal endophytes are needed to identify these microbes at the species level and elucidate their specific functional roles.
format	article
author	Sahar Abdelrazek Sulbha Choudhari Jyothi Thimmapuram Philipp Simon Micaela Colley Tesfaye Mengiste Lori Hoagland
author_facet	Sahar Abdelrazek Sulbha Choudhari Jyothi Thimmapuram Philipp Simon Micaela Colley Tesfaye Mengiste Lori Hoagland
author_sort	Sahar Abdelrazek
title	Changes in the core endophytic mycobiome of carrot taproots in response to crop management and genotype
title_short	Changes in the core endophytic mycobiome of carrot taproots in response to crop management and genotype
title_full	Changes in the core endophytic mycobiome of carrot taproots in response to crop management and genotype
title_fullStr	Changes in the core endophytic mycobiome of carrot taproots in response to crop management and genotype
title_full_unstemmed	Changes in the core endophytic mycobiome of carrot taproots in response to crop management and genotype
title_sort	changes in the core endophytic mycobiome of carrot taproots in response to crop management and genotype
publisher	Nature Portfolio
publishDate	2020
url	https://doaj.org/article/46be48a384f54d189a34ab55dcd8b038
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Changes in the core endophytic mycobiome of carrot taproots in response to crop management and genotype

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