Towards Stewardship of Wild Species and Their Domesticated Counterparts: A Case Study in Northern Wild Rice (Zizania palustrisL.) DOI Creative Commons
Lillian McGilp, Matthew Haas, Mingqin Shao

и другие.

bioRxiv (Cold Spring Harbor Laboratory), Год журнала: 2022, Номер unknown

Опубликована: Авг. 26, 2022

Abstract Northern Wild Rice (NWR; Zizania palustris L.) is an aquatic, annual grass with significant ecological, cultural, and economic importance to the Great Lakes region of North America. In this study, we assembled genotyped a diverse collection 839 NWR individuals using genotyping-by-sequencing (GBS) obtained 5,955 single-nucleotide polymorphisms (SNPs). Our consisted samples from 12 wild populations collected across Minnesota Western Wisconsin, some which were over two time points; representative cultivated varieties breeding populations; aquatica outgroup. Using these data, characterized genetic diversity, relatedness, population structure broad genotypes. We found that clustered primarily by their geographical location, clustering patterns likely influenced historical ecosystem management. Cultivated genetically distinct populations, suggesting limited gene flow between semi-domesticated crop its counterparts. The first genome-wide scans putative selection events in suggest undergoing heavy pressure for traits conducive irrigated paddy conditions. Overall, study presents large set SNP markers use studies provides new insights into flow, history, complexity NWR.

Язык: Английский

A stepwise guide for pangenome development in crop plants: an alfalfa (Medicago sativa) case study DOI Creative Commons
Harpreet Kaur, Laura M. Shannon, Deborah A. Samac

и другие.

BMC Genomics, Год журнала: 2024, Номер 25(1)

Опубликована: Окт. 31, 2024

The concept of pangenomics and the importance structural variants is gaining recognition within plant genomics community. Due to advancements in sequencing computational technology, it has become feasible sequence entire genome numerous individuals a single species at reasonable cost. Pangenomes have been constructed for many major diploid crops, including rice, maize, soybean, sorghum, pearl millet, peas, sunflower, grapes, mustards. However, pangenomes polyploid are relatively scarce available only few crops wheat, cotton, rapeseed, potatoes.

Язык: Английский

Процитировано

3
Towards Stewardship of Wild Species and Their Domesticated Counterparts: A Case Study in Northern Wild Rice (Zizania palustris L.) DOI Creative Commons
Lillian McGilp, Matthew Haas, Mingqin Shao

и другие.

Ecology and Evolution, Год журнала: 2025, Номер 15(3)

Опубликована: Март 1, 2025

ABSTRACT Northern Wild Rice (NWR; Zizania palustris L.) is an aquatic, annual grass with significant ecological, cultural, and economic importance to the Great Lakes region of North America. In this study, we assembled genotyped a diverse collection 839 NWR individuals using genotyping‐by‐sequencing (GBS) obtained 5955 single‐nucleotide polymorphisms (SNPs). This consisted samples from 12 wild populations collected across Minnesota Western Wisconsin, some which were over two time points; representative cultivated varieties breeding populations; aquatica outgroup. Using these data, characterized genetic diversity, relatedness, population structure broad genotypes. We found that clustered primarily by their geographical location, clustering patterns likely influenced historical ecosystem management. Cultivated genetically distinct populations, suggesting limited gene flow between semi‐domesticated crop its counterparts. The first genome‐wide scans putative selection events in suggest undergoing heavy pressure for traits conducive irrigated paddy conditions. Overall, study presents large set SNP markers use studies provides new insights into flow, history, complexity NWR.

Язык: Английский

Процитировано

0
Polyploidy in potatoes: challenges and possibilities for climate resilience DOI Creative Commons
Helen H. Tai, Laura M. Shannon, Martina V. Strömvik

и другие.

Trends in Genetics, Год журнала: 2025, Номер unknown

Опубликована: Апрель 1, 2025

Solanum section Petota Dumort. consists of tuber-bearing species (i.e., the cultivated potatoes and their wild relatives) that have both asexual sexual propagation, variation in ploidy, reproductive isolation. These undergone adaptation to a diversity climates, altitudes, photoperiods, geographical range. The defies characterization with biological concept due interspecies hybridization, allo- auto-polyploidy, phenotypic plasticity. Genetic studies, more recently genome sequencing pangenome analyses, are fostering greater understanding genetic processes shape evolution speciation section, shedding light on phylogeny providing insights utilization potato crop relatives breeding for climate-resilient varieties.

Язык: Английский

Процитировано

0
Towards Stewardship of Wild Species and Their Domesticated Counterparts: A Case Study in Northern Wild Rice (Zizania palustrisL.) DOI Creative Commons
Lillian McGilp, Matthew Haas, Mingqin Shao

и другие.

bioRxiv (Cold Spring Harbor Laboratory), Год журнала: 2022, Номер unknown

Опубликована: Авг. 26, 2022

Abstract Northern Wild Rice (NWR; Zizania palustris L.) is an aquatic, annual grass with significant ecological, cultural, and economic importance to the Great Lakes region of North America. In this study, we assembled genotyped a diverse collection 839 NWR individuals using genotyping-by-sequencing (GBS) obtained 5,955 single-nucleotide polymorphisms (SNPs). Our consisted samples from 12 wild populations collected across Minnesota Western Wisconsin, some which were over two time points; representative cultivated varieties breeding populations; aquatica outgroup. Using these data, characterized genetic diversity, relatedness, population structure broad genotypes. We found that clustered primarily by their geographical location, clustering patterns likely influenced historical ecosystem management. Cultivated genetically distinct populations, suggesting limited gene flow between semi-domesticated crop its counterparts. The first genome-wide scans putative selection events in suggest undergoing heavy pressure for traits conducive irrigated paddy conditions. Overall, study presents large set SNP markers use studies provides new insights into flow, history, complexity NWR.

Язык: Английский

Процитировано

1