Journal Article

Prunus genetics and applications after de novo genome sequencing: achievements and prospects

Eduardo, Iban, Abbott, Albert G, Kyoto University, Peace, Cameron, Clemson University, University of Kentucky (UK), Gasic, Ksenija, Consiglio per la Ricerca in Agricoltura e l’analisi dell’economia agraria = Council for Agricultural Research and Economics (CREA), Decroocq, Véronique, Dirlewanger, Elisabeth, Instituto de Investigaciones Agropecuarias, Tao, Ryutaro, Zhejiang University [Hangzhou, China], Biologie du fruit et pathologie (BFP) ; Université Bordeaux Segalen - Bordeaux 2-Institut National de la Recherche Agronomique (INRA)-Université Sciences et Technologies - Bordeaux 1 (UB), Jung, Sook, Aranzana, Maria Jose, Department of Horticulture ; University of Wisconsin-Madison, Centre de Recerca en Agrigenòmica CSIC-IRTA-UAB-UB ; Institute of Research and Technology, Food and Agriculture (IRTA), Arus, Pere, Verde, Ignazio, Prieto, Humberto, Department of Horticulture ; Washington State University (WSU), Iezzoni, Amy, Gao, Zhong Shan

2019

Overview

Prior to the availability of whole-genome sequences, our understanding of the structural and functional aspects of Prunus tree genomes was limited mostly to molecular genetic mapping of important traits and development of EST resources. With public release of the peach genome and others that followed, significant advances in our knowledge of Prunus genomes and the genetic underpinnings of important traits ensued. In this review, we highlight key achievements in Prunus genetics and breeding driven by the availability of these whole-genome sequences. Within the structural and evolutionary contexts, we summarize: (1) the current status of Prunus whole-genome sequences; (2) preliminary and ongoing work on the sequence structure and diversity of the genomes; (3) the analyses of Prunus genome evolution driven by natural and man-made selection; and (4) provide insight into haploblocking genomes as a means to define genome-scale patterns of evolution that can be leveraged for trait selection in pedigree-based Prunus tree breeding programs worldwide. Functionally, we summarize recent and ongoing work that leverages whole-genome sequences to identify and characterize genes controlling 22 agronomically important Prunus traits. These include phenology, fruit quality, allergens, disease resistance, tree architecture, and self-incompatibility. Translationally, we explore the application of sequence-based marker-assisted breeding technologies and other sequence-guided biotechnological approaches for Prunus crop improvement. Finally, we present the current status of publically available Prunus genomics and genetics data housed mainly in the Genome Database for Rosaceae (GDR) and its updated functionalities for future bioinformatics-based Prunus genetics and genomics inquiry.

• Publisher: Nature Publishing Group,CCSD,Nature Publishing Group UK,Oxford University Press
• Subject: 631/208/212 / 631/208/711 / 631/208/8 / Agribusiness / Agricultural production / Agriculture / Agronomy / Allergens / Bioinformatics / Biomedical and Life Sciences / Biotechnology / Breeding / Crop improvement / Cultivars / Data processing / Disease resistance / Ecology / Evolution / Fruits / Gene mapping / Gene sequencing / Genetic markers / Genetics / Genomes / Genomics / Incompatibility / Life Sciences / Mapping / Nucleotide sequence / Pedigree / Plant breeding / Plant Breeding/Biotechnology / Plant Genetics and Genomics / Plant Sciences / Prunus / Review / Review Article / Self-incompatibility / Structure-function relationships / Vegetal Biology / Whole genome sequencing
• ISBN: 0004673074000