scholarly journals High‐throughput sequencing‐based analysis of fungal diversity and taste quality evaluation of Douchi, a traditional fermented food

2020 ◽  
Vol 8 (12) ◽  
pp. 6612-6620
Author(s):  
Yurong Wang ◽  
Fanshu Xiang ◽  
Zhendong Zhang ◽  
Qiangchuan Hou ◽  
Zhuang Guo
Keyword(s):  
High Throughput ◽  
Fungal Diversity ◽  
Quality Evaluation ◽  
High Throughput Sequencing ◽  
Fermented Food ◽  
Taste Quality ◽  
Traditional Fermented Food

High Throughput Biotechnology in Traditional Fermented Food Industry

2010 ◽  
Vol 2 (3) ◽  
pp. 251-257 ◽  
Author(s):  
Yong Yang ◽  
Rong-man Xu ◽  
Jia Song ◽  
Wei-min Wang
Keyword(s):  
High Throughput ◽  
Food Industry ◽  
Fermented Food ◽  
Traditional Fermented Food

High Throughput Biotechnology in Traditional Fermented Food Industry

2010 ◽  
Vol 2 (3) ◽  
pp. 251-257
Author(s):  
Yong Yang ◽  
Rong-man Xu ◽  
Jia Song ◽  
Wei-min Wang
Keyword(s):  
High Throughput ◽  
Food Industry ◽  
Fermented Food ◽  
Traditional Fermented Food

scholarly journals Different Amplicon Targets for Sequencing-Based Studies of Fungal Diversity

2017 ◽  
Vol 83 (17) ◽  
Author(s):  
Francesca De Filippis ◽  
Manolo Laiola ◽  
Giuseppe Blaiotta ◽  
Danilo Ercolini
Keyword(s):  
Microbial Ecology ◽  
High Throughput ◽  
Biological Samples ◽  
Fungal Diversity ◽  
High Throughput Sequencing ◽  
Amplicon Sequencing ◽  
Fungal Species ◽  
Fungal Communities ◽  
Its2 Region ◽  
Mock Community

ABSTRACT Target-gene amplicon sequencing is the most exploited high-throughput sequencing application in microbial ecology. The targets are taxonomically relevant genes, with 16S rRNA being the gold standard for bacteria. As for fungi, the most commonly used target is the internal transcribed spacer (ITS). However, the uneven ITS length among species may promote preferential amplification and sequencing and incorrect estimation of their abundance. Therefore, the use of different targets is desirable. We evaluated the use of three different target amplicons for the characterization of fungal diversity. After an in silico primer evaluation, we compared three amplicons (the ITS1-ITS2 region [ITS1-2], 18S ribosomal small subunit RNA, and the D1/D2 domain of the 26S ribosomal large subunit RNA), using biological samples and a mock community of common fungal species. All three targets allowed for accurate identification of the species present. Nevertheless, high heterogeneity in ITS1-2 length was found, and this caused an overestimation of the abundance of species with a shorter ITS, while both 18S and 26S amplicons allowed for more reliable quantification. We demonstrated that ITS1-2 amplicon sequencing, although widely used, may lead to an incorrect evaluation of fungal communities, and efforts should be made to promote the use of different targets in sequencing-based microbial ecology studies. IMPORTANCE Amplicon-sequencing approaches for fungi may rely on different targets affecting the diversity and abundance of the fungal species. An increasing number of studies will address fungal diversity by high-throughput amplicon sequencing. The description of the communities must be accurate and reliable in order to draw useful insights and to address both ecological and biological questions. By analyzing a mock community and several biological samples, we demonstrate that using different amplicon targets may change the results of fungal microbiota analysis, and we highlight how a careful choice of the target is fundamental for a thorough description of the fungal communities.

High-throughput sequencing analysis of endophytic fungal diversity in cynanchum sp.

2020 ◽  
Vol 134 ◽  
pp. 349-358
Author(s):  
W.-H. Chen ◽  
S.-J. Wu ◽  
X.-L. Sun ◽  
K.-M. Feng ◽  
K. Rahman ◽  
...  
Keyword(s):  
High Throughput ◽  
Fungal Diversity ◽  
High Throughput Sequencing ◽  
Sequencing Analysis

scholarly journals Investigation of bacterial and fungal diversity in tarag using high-throughput sequencing

2014 ◽  
Vol 97 (10) ◽  
pp. 6085-6096 ◽  
Author(s):  
Zhihong Sun ◽  
Wenjun Liu ◽  
Qiuhua Bao ◽  
Jiachao Zhang ◽  
Qiangchuan Hou ◽  
...  
Keyword(s):  
High Throughput ◽  
Fungal Diversity ◽  
High Throughput Sequencing

scholarly journals High-throughput sequencing for the detection of the bacterial and fungal diversity in Mongolian naturally fermented cow’s milk in Russia

2015 ◽  
Vol 15 (1) ◽  
pp. 45 ◽  
Author(s):  
Wenjun Liu ◽  
Yi Zheng ◽  
Lai-Yu Kwok ◽  
Zhihong Sun ◽  
Jiachao Zhang ◽  
...  
Keyword(s):  
High Throughput ◽  
Fungal Diversity ◽  
High Throughput Sequencing ◽  
Cow’S Milk ◽  
Cow's Milk

scholarly journals Fungal Composition and Diversity of the Tobacco Leaf Phyllosphere during Curing of Leaves

2020 ◽  
Author(s):  
Qian-Li Chen ◽  
Lin Cai ◽  
Hancheng Wang ◽  
Liu-Ti Cai ◽  
Paul Goodwin ◽  
...  
Keyword(s):  
High Throughput ◽  
Fungal Diversity ◽  
High Throughput Sequencing ◽  
Rhizopus Oryzae ◽  
Curing Process ◽  
Leaf Lamina ◽  
Saprotrophic Fungi ◽  
Tobacco Leaves ◽  
Fungal Sequence ◽  
Abundant Genus

Abstract Background: Rhizopus oryzae causes tobacco pole rot in China during tobacco flue-curing. Flue-curing is a post-harvest process done to prepare tobacco leaves and involves three different stages: the yellowing stage has the lowest temperatures and highest humidity, then the color-fixing stage has higher temperatures and medium humidity, and finally the stem-drying stage has the highest temperatures and lowest humidity.Results: In this study, fungal culturing and IonS5TMXL high-throughput sequencing techniques were used to reveal the fungal community of the petioles and lamina of tobacco leaves infected with pole rot during flue-curing. A total of 108 fungal isolates belonging to 5 genera and 10 species were isolated on media. The most common fungi isolated was R. oryzae, most often found equally on petioles and laminas in the color-fixing stage, followed by saprotrophs, mostly Aspergillus fumigatus and Aspergillus flavus. High-throughput sequencing revealed saprotrophs, Alternaria being the most abundant genus, followed by Phoma, Cercospora and Aspergillus, whereas Rhizopus was the tenth most abundant genus, which was mostly found on petioles at the yellowing stage. Both culturable fungal diversity and fungal sequence diversity was higher at stem-drying stage than the yellowing and color-fixing stages, and diversity was higher with leaf lamina than petioles revealing that the changes in fungal composition and diversity during the curing process were similar with both methods.Conclusions: A better understanding of the saprotrophic fungi during curing of leaves with pole rot could result in the identification of highly competitive saproptrophs that may act as potential biocontrol agents of tobacco pole rot.

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