The paper presents a haplotype-resolved genome assembly of the pomegranate cultivar 'Wonderful' using DNA from haploid pollen grains and long-read sequencing technologies.

bioRxiv · Jul 18, 2026 · PreprintGenomics

IIIandMe: An Algorithm for Chromosome-scale Haplotype Determination Using Genome-wide Variants of Three Haploid Reproductive Cells

Han Qu, Ruidong Li, Lei Yu, Wei‐Ming Chen, Yuanfa Feng, Qiong Jia, Ryan C. Traband, Xuesong Wang, Shibo Wang, Luoxian He, Zixian Wang, Meng Qu, Sergio Pietro Ferrante, Jianguo Zhu, Weide Zhong, , Zhenyu Jia

IIIandMe improves haplotype phasing accuracy using three gametes, validated through simulation and citrus data.

bioRxiv · Dec 7, 2022 · PreprintBioinformatics

Inference of Chromosome-length Haplotypes Using Genomic Data of Three to Five Single Gametes

Ruidong Li, Han Qu, Jinfeng Chen, Shibo Wang, John M. Chater, Le Zhang, Julong Wei, Yuan‐Ming Zhang, Chenwu Xu, Weide Zhong, Jianguo Zhu, Jianming Lü, Yuanfa Feng, Weiming Chen, Renyuan Ma, , Zhenyu Jia

Hapi infers chromosome-length haplotypes from 3-5 gametes, outperforming existing methods in accuracy, reliability, and cost efficiency.

Molecular Biology and Evolution · Jul 9, 2020Peer-reviewedBioinformatics

Construction of high-density genetic maps and detection of QTLs associated with Huanglongbing infection in citrus

Ming Huang, Mikeal L. Roose, Qibin Yu, Dongliang Du, Yi Zhang, Deng ZhaNao, Michael Irey, Ed W. Stover, Frederick G. Gmitter

The paper constructs high-density genetic maps and identifies QTLs associated with Huanglongbing infection in citrus using an intergeneric F1 population.

Frontiers in Plant Science · Nov 27, 2018Peer-reviewedGenetics