JGG | overview of duhuilong group of Hebei University Research on plant pan genomics

In recent years , The development of sequencing technology and the reduction of sequencing cost have made great progress in plant genomics . With the deepening of research , Researchers have found that a single reference genome cannot represent the genetic diversity of a species , Thus, the pan genome (Pan-genome) The concept of . Pan genome is the sum of all genes and genome sequences in a specific population , It can break through the limitations of the traditional single reference genome . At present, soybean has been developed in the world 、 rice 、 tomato 、 corn 、 Wheat 、 Pan genomic studies of crops such as barley and potato , future , Pan genome is expected to replace single reference genome , It has become an important tool for the study of plant evolution and the mining of important functional genes “ The new standard ”.

2022 year 6 month 21 Japan ,Journal of Genetics and Genomics College of life sciences, Hebei University Duhuilong The professor's team is entitled “Plant pan-genomics: recent advances, new challenges, and roads ahead” A review of the paper . The review is comprehensive The research progress of plant pan genomics is summarized , The challenges faced by the development of plant pan genomics and the future research direction are also discussed .

https://doi.org/10.1016/j.jgg.2022.06.004

Focus on plant pan genomics , This review mainly introduces the relevant research progress from four aspects , Include ：

1. The concept of Pan genome and different construction methods . Following the first by Tettelin After proposing the concept of Pan genome in microorganisms , In recent years , The pan genome project for several species has been implemented , Its construction method has also made great progress . At present, the construction methods of Pan genome mainly include de novo assembly 、 Iterative assembly and graph theory based assembly .

2. Advances in plant pan genomics . This paper summarizes the recent development of rice 、 soybean 、 corn 、 Progress in Pan genome research of important cash crops such as wheat and tomato , The main contents of current pan genomics research are summarized 、 Factors influencing the number of Pan genomic samples and the functional differences between variable genes and conserved genes .

3. Pan genome analysis process and related software . The software and analysis process for Pan genome analysis are briefly summarized , Selection of representative materials involved 、 Genome assembly 、 Genome annotation 、 Identification of conserved and variable genes 、 Genomic structural variation (Structural variation, SV) testing 、 Pan genome construction and genome-wide association analysis , In order to provide a simple reference for related research .

4. Challenges and future prospects of plant pan genomics . The challenges faced by the development of plant pan genomics are summarized , Proposed the integration of Pan genome 、 Phenotypic group 、 Transcriptome 、 Modification group and metabolomic data , Combined with artificial intelligence and gene editing technology , Carry out in-depth research on its functions , Truly realize accurate genome prediction and promote molecular breeding .

Sum up , This review summarizes the important research progress of plant pan genome , The important development direction of plant pan genomics in the future is discussed .

Prospects for the development of plant pan genomics

Researcher of College of life sciences, Hebei University Li Wei and 2021 Master's degree Liujianan He is the first author of the paper , Duhuilong The professor is the corresponding author . Relevant work was supported by the National Natural Science Foundation of China 、 The natural science foundation of Hebei Province and the interdisciplinary natural science of Hebei University .

Quote this article ：Wei Li, Jianan Liu, Hongyu Zhang, Ze Liu, Yu Wang, Longsheng Xing, Qiang He, Huilong Du. (2022). Plant pan-genomics: recent advances, new challenges, and roads ahead. Journal of Genetics and Genomics. DOI: 10.1016/j.jgg.2022.06.004.

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