Genetic Diversity and Population Structure Analysis of Coffee (<i>Coffea canephora</i>) Germplasm Collections in Indian Gene Bank Employing SRAP and SCoT Markers

Huded, Arun Kumar C.; Jingade, Pavankumar; Bychappa, Muniswamy; Mishra, Manoj Kumar

doi:10.1080/15538362.2020.1768618

Cited by 25 publications

(7 citation statements)

References 54 publications

(70 reference statements)

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“…Characterizations by molecular markers performed by Souza et al (2013), Solórzano et al (2017) and Huded et al (2020 also revealed wide genetic diversity in C. canephora and reinforce the importance of this information for the hybridization between germplasms and for the composition of clonal varieties…”

Section: Discussionmentioning

confidence: 78%

Molecular characterization of parents and hybrid progenies of conilon coffee

Souza¹,

Ferrão

Carvalho

et al. 2021

An. Acad. Bras. Ciênc.

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The objective of the present work was the molecular characterization of 11 parents and 101 hybrid progenies of conilon coffee, obtained through diallel crosses from the breeding program of the Instituto Capixaba de Pesquisa, Assistência Técnica e Extensão Rural (Incaper, ES, Brazil). The analyses were performed with 18 Simple Sequence Repeat (SSR) molecular markers, obtaining a total of 32 alleles. SSR markers were classifi ed as moderately informative (PIC = 0.37), being effi cient in characterizing individuals. High genetic diversity was verifi ed in the 112 genotypes, based on the greater values of observed heterozygosity about to the expected heterozygosity (0.55 and 0.44, respectively), negative values for the fi xation index (F) (-0.14), and the formation of distinct groups by UPGMA. These results indicate high genetic variability among the conilon coffee genitors, which remained similar and persisting in the progenies.The average dissimilarity between parents was 0.29 and between progenies 0.34. The progenies 38 and 40 and the parent P11 were considered the most divergent in the study.The genetic variability found can be explored in the genetic breeding of the conilon coffee and guide crossings between diversifi ed and compatible genetic materials, for the composition of novel cultivars for the state of Espírito Santo.

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Section: Discussionmentioning

confidence: 78%

Molecular characterization of parents and hybrid progenies of conilon coffee

Souza¹,

Ferrão

Carvalho

et al. 2021

An. Acad. Bras. Ciênc.

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“…The excellent coffee genome-wide sequence has made it feasible to identify the gene and protein components in coffee cherries by using transcriptomic and proteomic analytical approaches [ 11 ]. Transcriptomics by itself was unable to precisely forecast the amount of proteins and the activity of proteases [ 12 ]. Low-molecular-weight metabolites and high-molecular-weight proteins as well as the dynamic state of the cell could be analyzed qualitatively and quantitatively using combined metabolomics and proteomics [ 13 ].…”

Section: Introductionmentioning

confidence: 99%

Literature Review of Proteomics Approach Associated with Coffee

Zaman,

Shan

2024

Foods

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As a significant crop growing all across the world, coffee is mostly produced in the bean belt of our global atlas. Worldwide variations in environmental conditions are causing a decline in the yield and quality of coffee varieties. Coffee production is the main emphasis of several traditional breeding techniques. But conventional breeding methods are not sufficient to tackle the problems related to coffee. The field of genomics, which includes transcriptomics, proteomics, and metabolomics, has made great paces in the last ten years. Proteomics is a well-known technique used to enhance the growth, yield, breeding, and quality of different plants under stable and shifting environments. The regulation of specific enzymes, genes, protein expression, modification, translation, and other features played an important role in the enhancement of important plants. However, relatively less research on the proteomics approach for coffee has been published in the last few years. For this reason, some of the most important aspects of proteome profiling for coffee plants have been covered in this review, including growth, the somatic embryo technique, altitude, environmental adoption, drought, and the role that proteins and important enzymes play in the flavor and taste of coffee. This review can aid in the breeding of new cultivars and improve coffee attributes. Furthermore, the present literature can pave the way for proteomics research on coffee.

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“…In recent years, omics technology has been considered an effective way to reveal the relationship between metabolites, proteins, and genes [ 9 ]. The high-quality coffee genome-wide sequence has made it possible to apply transcriptomic and proteomic analysis techniques to detect the gene and protein compositions in coffee cherries [ 10 , 11 ], while applying transcriptomics alone could not accurately predict the protein abundance and protease activity [ 11 ]. Combined metabolomics and proteomics could be used for qualitative and quantitative analyses of low-molecular-weight metabolites and high-molecular-weight proteins, and the dynamic state of the cell, respectively [ 12 ].…”

Section: Introductionmentioning

confidence: 99%

Integrating Metabolomics and Proteomics Technologies Provides Insights into the Flavor Precursor Changes at Different Maturity Stages of Arabica Coffee Cherries

Zhou

Zheng

et al. 2023

Foods

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The metabolic modulation of major flavor precursors during coffee cherry ripening is critical for the characteristic coffee flavor formation. However, the formation mechanism of flavor precursors during coffee cherry ripening remains unknown. In the present study, a colorimeter was employed to distinguish different maturity stages of coffee cherry based on the coffee cherry skin colors, and proteomics and metabolomics profiles were integrated to comprehensively investigate the flavor precursor dynamics involved in Arabica coffee cherry ripening. The data obtained in the present study provide an integral view of the critical pathways involved in flavor precursor changes during coffee cherry ripening. Moreover, the contributions of critical events in regulating the development of flavor precursors during the four ripening stages of coffee cherries, including the biosynthesis and metabolism pathways of organic acids, amino acids, flavonoids, and sugars, are discussed. Overall, a total of 456 difference express metabolites were selected, and they were identified as being concentrated in the four maturity stages of coffee cherries; furthermore, 76 crucial enzymes from the biosynthesis and metabolism of sugars, organic acids, amino acids, and flavonoids contributed to flavor precursor formation. Among these enzymes, 45 difference express proteins that could regulate 40 primary amino acids and organic acids flavor precursors were confirmed. This confirmation indicates that the metabolic pathways of amino acids and organic acids played a significant role in the flavor formation of Arabica coffee cherries during ripening. These results provide new insights into the protease modulation of flavor precursor changes in Arabica coffee cherry ripening.

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Genetic Diversity and Population Structure Analysis of Coffee (Coffea canephora) Germplasm Collections in Indian Gene Bank Employing SRAP and SCoT Markers

Cited by 25 publications

References 54 publications

Molecular characterization of parents and hybrid progenies of conilon coffee

Molecular characterization of parents and hybrid progenies of conilon coffee

Literature Review of Proteomics Approach Associated with Coffee

Integrating Metabolomics and Proteomics Technologies Provides Insights into the Flavor Precursor Changes at Different Maturity Stages of Arabica Coffee Cherries

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