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Metagenomic Sequencing to Analyze Composition and Function of Top-Gray Chalky Grain Microorganisms from Hybrid Rice Seeds

The top-gray chalkiness of hybrid rice (Oryza sativa L.) seeds is a typical phenomenon in hybrid rice seeds. The chalky part of the grain is infected and is the inoculum to infect the normal seeds during storage and soaking. These seed-associated microorganisms were cultivated and sequenced using me...

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Autores principales: Liu, You, Yuan, Yuan, Yuan, Hui, Wang, Yan, Jin, Chenzhong, Zhang, Hao, Tang, Jianliang, Hu, Yihong
Formato: Online Artículo Texto
Lenguaje:English
Publicado: MDPI 2023
Materias:
Acceso en línea:https://www.ncbi.nlm.nih.gov/pmc/articles/PMC10305155/
https://www.ncbi.nlm.nih.gov/pubmed/37375983
http://dx.doi.org/10.3390/plants12122358
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author Liu, You
Yuan, Yuan
Yuan, Hui
Wang, Yan
Jin, Chenzhong
Zhang, Hao
Tang, Jianliang
Hu, Yihong
author_facet Liu, You
Yuan, Yuan
Yuan, Hui
Wang, Yan
Jin, Chenzhong
Zhang, Hao
Tang, Jianliang
Hu, Yihong
author_sort Liu, You
collection PubMed
description The top-gray chalkiness of hybrid rice (Oryza sativa L.) seeds is a typical phenomenon in hybrid rice seeds. The chalky part of the grain is infected and is the inoculum to infect the normal seeds during storage and soaking. These seed-associated microorganisms were cultivated and sequenced using metagenomics shotgun sequencing to obtain more comprehensive information on the seed-associated microorganisms in this experiment. The results showed that fungi could grow well on the rice flour medium, similar to the ingredients of rice seed endosperms. After the assembly of metagenomic data, a gene catalog was established, comprising 250,918 genes. Function analysis showed that glycoside hydrolases were the dominant enzymes, and the genus Rhizopus accounted for the dominant microorganisms. The fungal species R. microspores, R. delemar, and R. oryzae were likely to be the candidate pathogens in the top-gray chalky grains of hybrid rice seeds. These results will provide a reference for improving hybrid rice processing after harvest.
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spelling pubmed-103051552023-06-29 Metagenomic Sequencing to Analyze Composition and Function of Top-Gray Chalky Grain Microorganisms from Hybrid Rice Seeds Liu, You Yuan, Yuan Yuan, Hui Wang, Yan Jin, Chenzhong Zhang, Hao Tang, Jianliang Hu, Yihong Plants (Basel) Article The top-gray chalkiness of hybrid rice (Oryza sativa L.) seeds is a typical phenomenon in hybrid rice seeds. The chalky part of the grain is infected and is the inoculum to infect the normal seeds during storage and soaking. These seed-associated microorganisms were cultivated and sequenced using metagenomics shotgun sequencing to obtain more comprehensive information on the seed-associated microorganisms in this experiment. The results showed that fungi could grow well on the rice flour medium, similar to the ingredients of rice seed endosperms. After the assembly of metagenomic data, a gene catalog was established, comprising 250,918 genes. Function analysis showed that glycoside hydrolases were the dominant enzymes, and the genus Rhizopus accounted for the dominant microorganisms. The fungal species R. microspores, R. delemar, and R. oryzae were likely to be the candidate pathogens in the top-gray chalky grains of hybrid rice seeds. These results will provide a reference for improving hybrid rice processing after harvest. MDPI 2023-06-18 /pmc/articles/PMC10305155/ /pubmed/37375983 http://dx.doi.org/10.3390/plants12122358 Text en © 2023 by the authors. https://creativecommons.org/licenses/by/4.0/Licensee MDPI, Basel, Switzerland. This article is an open access article distributed under the terms and conditions of the Creative Commons Attribution (CC BY) license (https://creativecommons.org/licenses/by/4.0/).
spellingShingle Article
Liu, You
Yuan, Yuan
Yuan, Hui
Wang, Yan
Jin, Chenzhong
Zhang, Hao
Tang, Jianliang
Hu, Yihong
Metagenomic Sequencing to Analyze Composition and Function of Top-Gray Chalky Grain Microorganisms from Hybrid Rice Seeds
title Metagenomic Sequencing to Analyze Composition and Function of Top-Gray Chalky Grain Microorganisms from Hybrid Rice Seeds
title_full Metagenomic Sequencing to Analyze Composition and Function of Top-Gray Chalky Grain Microorganisms from Hybrid Rice Seeds
title_fullStr Metagenomic Sequencing to Analyze Composition and Function of Top-Gray Chalky Grain Microorganisms from Hybrid Rice Seeds
title_full_unstemmed Metagenomic Sequencing to Analyze Composition and Function of Top-Gray Chalky Grain Microorganisms from Hybrid Rice Seeds
title_short Metagenomic Sequencing to Analyze Composition and Function of Top-Gray Chalky Grain Microorganisms from Hybrid Rice Seeds
title_sort metagenomic sequencing to analyze composition and function of top-gray chalky grain microorganisms from hybrid rice seeds
topic Article
url https://www.ncbi.nlm.nih.gov/pmc/articles/PMC10305155/
https://www.ncbi.nlm.nih.gov/pubmed/37375983
http://dx.doi.org/10.3390/plants12122358
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