GenoBaits®WheatplusEE: a Targeted Capture Sequencing Panel for Quick and Accurate Identification of Wheat-Thinopyrum Derivatives

Overview

Journal Theor Appl Genet

Publisher Springer

Specialty Genetics

Date 2024 Jan 30

PMID 38291310

Authors

Pingchuan Deng

Xin Du

Yanzhen Wang

Xiaoying Yang

Xiaofang Cheng

Chenxi Huang

Tingting Li

Tingdong Li

Chunhuan Chen

Jixin Zhao

Changyou Wang

Xinlun Liu

Zengrong Tian

Wanquan Ji

Affiliations

Soon will be listed here.

Abstract

A total of 90,000 capture probes derived from wheat and Thinopyrum elongatum were integrated into one chip, which served as an economical genotype for explorating Thinopyrumspecies and their derivatives. Thinopyrum species play a crucial role as a source of new genetic variations for enhancing wheat traits, including resistance to both abiotic and biotic factors. Accurate identification of exogenous chromosome(s) or chromosome segments or genes is essential following the introduction of alien genetic material into wheat, but this task remains challenging. This study aimed to develop a high-resolution wheat-Thinopyrum elongatum array, named GenoBaits®WheatplusEE, to trace alien genetic information by genotyping using a target sequencing system. This GenoBaits®WheatplusEE array included 90,000 capture probes derived from two species and integrated into one chip, with 10,000 and 80,000 originating from wheat and Th. elongatum, respectively. The capture probes were strategically positioned in genes and evenly distributed across the genome, facilitating the development of a roadmap for identifying each alien gene. The array was applied to the high-throughput identification of the alien chromosomes or segments in Thinopyrum and distantly related species and their derivatives. Our results demonstrated that the GenoBaits®WheatplusEE array could be used for direct identification of the breakpoint of alien segments, determine copy number of alien chromosomes, and reveal variations in wheat chromosomes by a single round of target sequencing of the sample. Additionally, we could efficiently and cost-effectively genotype, supporting the exploration of subgenome composition, phylogenetic relationships, and polymorphisms in essential genes (e.g., Fhb7 gene) among Thinopyrum species and their derivatives. We hope that GenoBaits®WheatplusEE will become a widely adopted tool for exporting wild germplasm for wheat improvement in the future.

Citing Articles

Characterization of the wheat-tetraploid Thinopyrum elongatum 7E(7D) substitution line with Fusarium head blight resistance.

Wu D, Wang F, Chen L, Mao Y, Li Y, Zhu W BMC Plant Biol. 2024; 24(1):1006.

PMID: 39455993 PMC: 11515827. DOI: 10.1186/s12870-024-05703-3.

Cytogenetic identification and molecular mapping for the wheat-Thinopyrum ponticum introgression line with resistance to Fusarium head blight.

Yang X, Cheng X, Wang G, Song S, Ding X, Xiong H Theor Appl Genet. 2024; 137(8):191.

PMID: 39046492 DOI: 10.1007/s00122-024-04686-x.

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