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153603

POPULATION STRUCTURE AND GENOME-WIDE ASSOCIATION ANALYSIS FOR SALINITY TOLERANCE IN BREAD WHEAT USING SNP, SSR AND SCOT MARKER ASSAYS

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Last updated: 03 Jan 2025

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Abstract

Wheat is an essential staple food in the developing world, where demand is projected to grow exponentially in the future; simultaneously, climate changes are projected to reduce supply in the near future. One of the main consequences of climate change is salinity, which negatively impacts the world's cultivated area and therefore affects the global wheat production. Our objectives are to study the population structure of several Egyptian and international wheat accessions and to identify the genetic factors controlling the salinity stress response of bread wheat. In addition, we have attempt to identify genes that control some important agronomic parameters of wheat under salinity stress were identified. The wheat germplasm panel consisted of 70 accessions obtained from Egypt, Syria and Iran. The assessment of salinity tolerance was conducted over the years of 2018 and 2019 in the field and in the greenhouse. The genome association analysis (GWAS) and population structure analysis was conducted using six SCoT, five SSR and 93 SNP markers. Analysis of the population structure using allele frequency and phylogenetic analysis indicated that the studied wheat accessions were belong to four population groups. Where, for the most portion, Egyptian, Syrian and Iranian accessions are clustered depending on their country of origin. The GWAS analysis revealed 13 SNP markers that were significantly associated with morpho-agronomic wheat traits during salinity stress. These markers were closely related to genes that are known to have a direct link to wheat response to salinity stress such as CYP709B2, MDIS2, STAYGREEN, PIP5K9, and MSSP2 genes. This study revealed the genetic structure of adapted and imported wheat accessions, which could be used to select potential wheat accessions for local breeding programs. In addition, the SNP genotyping assay is a very potential technology that could be efficiently applied to detect genes that control bread wheat response to salinity stress.

DOI

10.21608/ajs.2020.153603

Keywords

Wheat, salinity, SNP genotyping, SSR, SCoT, GWAS

Authors

First Name

Alsamman

Last Name

Alsamman

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Affiliation

Agricultural Genetic Engineering Research Institute, PO Box 12619, Giza, Egypt

Email

smahmoud@ageri.sci.eg

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Orcid

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First Name

S.D.

Last Name

Ibrahim

MiddleName

-

Affiliation

Agricultural Genetic Engineering Research Institute, PO Box 12619, Giza, Egypt

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Orcid

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First Name

Mohamed

Last Name

Rashed

MiddleName

-

Affiliation

Genetics Dept., Fac. of Agric., Ain Shams Univ., P.O. Box 68, Hadayek Shoubra 11241, Cairo, Egypt

Email

rashed5012@yahoo.com

City

-

Orcid

0000-0003-4232-5201

First Name

Ayman

Last Name

Atta

MiddleName

-

Affiliation

Genetics Dept., Fac. of Agric., Ain Shams Univ., P.O. Box 68, Hadayek Shoubra 11241, Cairo, Egyp

Email

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City

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Orcid

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First Name

M.S.

Last Name

Ahmed

MiddleName

-

Affiliation

Agricultural Genetic Engineering Research Institute, PO Box 12619, Giza, Egypt, International Center for Agricultural Research in the Dry Areas (ICARDA), PO Box 2416, Cairo, Egypt

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City

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Orcid

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First Name

Alaa

Last Name

Hamwieh

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-

Affiliation

International Center for Agricultural Research in the Dry Areas (ICARDA), PO Box 2416, Cairo, Egypt

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Volume

28

Article Issue

3

Related Issue

22463

Issue Date

2020-09-01

Receive Date

2020-08-30

Publish Date

2020-09-30

Page Start

871

Page End

884

Print ISSN

1110-2675

Online ISSN

2636-3585

Link

https://ajs.journals.ekb.eg/article_153603.html

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https://ajs.journals.ekb.eg/service?article_code=153603

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12

Type

Original Article

Type Code

668

Publication Type

Journal

Publication Title

Arab Universities Journal of Agricultural Sciences

Publication Link

https://ajs.journals.ekb.eg/

MainTitle

POPULATION STRUCTURE AND GENOME-WIDE ASSOCIATION ANALYSIS FOR SALINITY TOLERANCE IN BREAD WHEAT USING SNP, SSR AND SCOT MARKER ASSAYS

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Article

Created At

22 Jan 2023