鲶鱼养殖中细菌微生物群分析的高通量测序方法比较

IF 1.4 4区农林科学 Q3 FISHERIES

North American Journal of Aquaculture Pub Date : 2023-11-15 DOI:10.1002/naaq.10309

Caitlin E. Older, Fernando Y. Yamamoto, Matt J. Griffin, Cynthia Ware, Taylor I. Heckman, Esteban Soto, Brian G. Bosworth, Geoffrey C. Waldbieser

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引用次数: 0

摘要

水产养殖中的细菌群落分析可用于监测可能导致疾病暴发的环境条件，了解饮食处理对鱼类健康的影响，以及识别具有益生菌潜力的微生物。微生物群表征通常使用短读平台(即Illumina)进行高通量测序，靶向细菌16S核糖体RNA (rRNA)基因的可变区域。长读平台(即Oxford Nanopore Technologies [ONT])可以对全长16S rRNA基因进行测序。虽然短读平台非常准确，但长读平台牺牲了序列质量以换取更长的读取长度。

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Comparison of high-throughput sequencing methods for bacterial microbiota profiling in catfish aquaculture

Bacterial community profiling in aquaculture can be useful for monitoring environmental conditions that may lead to disease outbreaks, understanding the impact of dietary treatments on fish health, and identifying microbes that have potential as probiotics. Microbiota characterization is commonly performed with high-throughput sequencing using short-read platforms (i.e., Illumina) targeting variable regions of the bacterial 16S ribosomal RNA (rRNA) gene. Long-read platforms (i.e., Oxford Nanopore Technologies [ONT]) enable sequencing of full-length 16S rRNA genes. While short-read platforms are highly accurate, long-read platforms sacrifice sequence quality in exchange for longer read lengths.

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来源期刊

North American Journal of Aquaculture 农林科学-渔业

CiteScore

2.50

自引率

0.00%

发文量

审稿时长

18-36 weeks

期刊介绍： The North American Journal of Aquaculture publishes papers on new research and practical experience in all areas of intensive and extensive fish culture. Topics include broodstock selection and spawning, nutrition and feeding, health and water quality, facilities and production technology, and the management of ponds, pens, and raceways. The journal will consider papers dealing with ways to improve the husbandry of any aquatic species—marine or freshwater, vertebrate or invertebrate—raised for commercial, scientific, recreational, enhancement, or restoration purposes that may be of interest to practitioners in North America. Its scope includes both basic and applied science, but applied scientific endeavors—including practical experiences, descriptive studies, and other nontraditional, but pertinent works—are emphasized.