Dataset Information

Utility of Triti-Map for bulk-segregated mapping of causal genes and regulatory elements in Triticeae.

ABSTRACT: Triticeae species, including wheat, barley, and rye, are critical for global food security. Mapping agronomically important genes is crucial for elucidating molecular mechanisms and improving crops. However, Triticeae includes many wild relatives with desirable agronomic traits, and frequent introgressions occurred during Triticeae evolution and domestication. Thus, Triticeae genomes are generally large and complex, making the localization of genes or functional elements that control agronomic traits challenging. Here, we developed Triti-Map, which contains a suite of user-friendly computational packages specifically designed and optimized to overcome the obstacles of gene mapping in Triticeae, as well as a web interface integrating multi-omics data from Triticeae for the efficient mining of genes or functional elements that control particular traits. The Triti-Map pipeline accepts both DNA and RNA bulk-segregated sequencing data as well as traditional QTL data as inputs for locating genes and elucidating their functions. We illustrate the usage of Triti-Map with a combination of bulk-segregated ChIP-seq data to detect a wheat disease-resistance gene with its promoter sequence that is absent from the reference genome and clarify its evolutionary process. We hope that Triti-Map will facilitate gene isolation and accelerate Triticeae breeding.

SUBMITTER: Zhao F

PROVIDER: S-EPMC9284283 | biostudies-literature | 2022 Jul

REPOSITORIES: biostudies-literature

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Utility of Triti-Map for bulk-segregated mapping of causal genes and regulatory elements in Triticeae.

Zhao Fei F Tian Shilong S Wu Qiuhong Q Li Zijuan Z Ye Luhuan L Zhuang Yili Y Wang Meiyue M Xie Yilin Y Zou Shenghao S Teng Wan W Tong Yiping Y Tang Dingzhong D Mahato Ajay Kumar AK Benhamed Moussa M Liu Zhiyong Z Zhang Yijing Y

Plant communications 20220218 4

Triticeae species, including wheat, barley, and rye, are critical for global food security. Mapping agronomically important genes is crucial for elucidating molecular mechanisms and improving crops. However, Triticeae includes many wild relatives with desirable agronomic traits, and frequent introgressions occurred during Triticeae evolution and domestication. Thus, Triticeae genomes are generally large and complex, making the localization of genes or functional elements that control agronomic t ...[more]

PMID: 35605195

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Dataset Information

Utility of Triti-Map for bulk-segregated mapping of causal genes and regulatory elements in Triticeae.

Publications

Utility of Triti-Map for bulk-segregated mapping of causal genes and regulatory elements in Triticeae.

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