Modern Tools for the Identification of Fungi, Including Yeasts

Tahir, Ayesha; Iqbal, Irfana; Kalhoro, Muhammad Talib; Luhuai, Jing; Chen, Xiaoming; Akbar, Ali; Asghar, Anam; Ali, Imran

doi:10.1007/978-981-16-4907-3_2

Cited by 2 publications

(2 citation statements)

References 107 publications

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“…Molecular markers play a universally reputed and prominent role in plant breeding studies, serving various purposes (Nadeem et al, 2018). One crucial application of molecular markers is assessing genetic diversity (Nadeem et al, 2018;Ali et al, 2019;Gautam et al, 2022;Tahir et al, 2022). In cotton, various DNA marker systems have been employed to identify genetic diversity including RFLP (Yu et al, 1997), RAPD (Bukhari et al, 2021), AFLP ( Jian et al, 2017), SSR (Yu et al, 2012;Tang et al, 2015), ISSR (Ashraf et al, 2016) and iPBS-retrotransposons (Baran et al, 2023).…”

Section: Introductionmentioning

confidence: 99%

Exploring Genetic Diversity in Cotton Genotypes Using EST-SSR and ISSR Markers: A Comparative Study

Iqbal,

Altaf,

Jan

et al. 2023

SJA

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| Cotton (Gossypium hirsutum L.) is a significant global crop and a vital raw material for industries. Studying existing cotton germplasm is crucial for discovering new genetic resources for future breeding. In this study, the effectiveness of EST-SSRs and ISSRs markers were compared for assessing genetic variation among 45 Pakistani Bt and non-Bt cotton varieties. ISSR and EST-SSR primers yielded 108 and 28 loci, respectively. The polymorphism was found 32.40% for ISSR, while 89.28% was recorded for SSR primers. Cluster analysis revealed a high level of genetic similarity for ISSR (average 0.92) and EST-SSR (average 0.85) among cotton genotypes. The mean polymorphic information content (PIC) value was 0.25 for ISSR, whereas it was recorded 0.48 for EST-SSRs. Confusion probability (Cj) exhibited a negative association with discriminating power (Dj), while Dj displayed a positive association with PIC. Marker discriminating statistics showed that EST-SSRs have a high expected heterozygosity of polymorphic loci (Hep) as compared to ISSR, along with a higher marker index value (MI). The effective multiplex ratio for ISSRs (1.40) was greater than EST-SSRs (1.12). The structural analysis revealed 6 sub-clusters for EST-SSRs and 4 sub-clusters for ISSRs. This phylogenetic study is crucial for identifying promising genotypes for breeding programs, especially given the limited genetic diversity in cotton breeding. The study showed that Bt cotton genotypes share a high genetic similarity, emphasizing the need for introducing diverse or exotic genotypes into breeding programs to enrich genetic diversity. Additionally, marker-discriminating indices can aid in selecting effective markers to assess genetic variation, facilitating the development of improved cotton varieties with desired traits.

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Section: Introductionmentioning

confidence: 99%

Exploring Genetic Diversity in Cotton Genotypes Using EST-SSR and ISSR Markers: A Comparative Study

Iqbal,

Altaf,

Jan

et al. 2023

SJA

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“…Molecular markers are the portions of DNA sequences dispersed along the genome used to identify a given organism [ 9 ]. As the number of molecular markers increases, the identification, characterization, and detection of essential fungi become timelier and more straightforward [ 10 , 11 ].…”

Section: Introductionmentioning

confidence: 99%

Molecular Markers: An Overview of Data Published for Fungi over the Last Ten Years

Oliveira

Azevedo

2022

JoF

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Fungi are amongst the most abundant and diverse organisms. Despite being widely known for their adverse role in food spoilage or as pathogens for humans, animals, or plants, they also present several beneficial effects. Fungi contribute to human well-being due to their role as decomposers, degrading decay matter into smaller molecules which can be easily used by other ecosystem members. These organisms can produce medicinal compounds or modulate protective immune responses in human intestine. Fungi intervene in diverse food processes or act as a food supply. Due to fungal diversity, the unequivocal identification of these organisms is crucial to increasing their practical applications and decreasing their adverse effects. The process of identification could be achieved through the integral sequencing of fungi genomes. However, this procedure would be time-consuming and rather cost-inefficient. Therefore, several molecular markers have been developed to overcome these limitations. The chronology of DNA-based molecular markers development can be divided into three main steps: (1) prior to the development of the PCR technique (RFLP); (2) after the development of the PCR technique (RAPD, AFLP, ISSR, VNTR, SNP, InDels, and DNA barcoding); (3) after the development of the massive parallel sequencing technique (Metabarcoding and WGS). Therefore, the present review covers an overview of the most recently developed molecular markers used for fungal detection and identification.

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Modern Tools for the Identification of Fungi, Including Yeasts

Cited by 2 publications

References 107 publications

Exploring Genetic Diversity in Cotton Genotypes Using EST-SSR and ISSR Markers: A Comparative Study

Exploring Genetic Diversity in Cotton Genotypes Using EST-SSR and ISSR Markers: A Comparative Study

Molecular Markers: An Overview of Data Published for Fungi over the Last Ten Years

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