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Chromosome-level genome assembly of the diploid blueberry Vaccinium darrowii provides insights into its subtropical adaptation and cuticle synthesis

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Plant Communications 2022年第4期3卷 105-123页

作者： Fuqiang Cui Xiaoxue Ye Xiaoxiao Li Yifan Yang Zhubing Hu kirk overmyer Mikael Brosche Hong Yu Jarkko Salojarvi College of Forestry and Biotechnology State Key Laboratory of Subtropical SilvicultureZhejiang A&F UniversityLin’anHangzhou 311300China Key Laboratory of Biology and Genetic Resources of Tropical Crops Institute of Tropical Bioscience and BiotechnologyChinese Academy of Tropical Agricultural SciencesHaikouHainan 571101China School of Biological Sciences Nanyang Technological UniversitySingaporeSingapore Organismal and Evolutionary Biology Research Program Faculty of Biological and Environmental Sciencesand the Viikki Plant Science CentreUniversity of HelsinkiPO Box 65(Viikinkaari 1)00014 HelsinkiFinland Institute of Botany Jiangsu Province and Chinese Academy of SciencesNanjingChina State Key Laboratory of Cotton Biology Department of BiologyInstitute of Plant Stress BiologyHenan UniversityKaifengChina

Vaccinium darrowii is a subtropical wild blueberry species that has been used to breed economically important southern highbush cultivars.The adaptive traits of V.darrowii to subtropical climates can provide valuable information for breeding blueberry and perhaps other plants,especially against the background of global warming.Here,we assembled the V.darrowii genome into 12 pseudochromosomes using Oxford Nanopore long reads complemented with Hi-C scaffolding technologies,and we predicted 41815 genes using RNA-sequencing evidence.Syntenic analysis across three Vaccinium species revealed a highly conserved genome structure,with the highest collinearity between V.darrowii and Vaccinium corymbosum.This conserved genome structure may explain the high fertility observed during crossbreeding of V.darrowii with other blueberry cultivars.Analysis of gene expansion and tandem duplication indicated possible roles for defense-and flowering-associated genes in the adaptation of V.darrowii to the subtropics.Putative SOC1 genes in V.darrowii were identified based on phylogeny and expression analysis.Blueberries are covered in a thick cuticle layer and contain anthocyanins,which confer their powdery blue color.Using RNA sequencing,we delineated the cuticle biosynthesis pathways of Vaccinium species in V.darrowii.This result can serve as a reference for breeding berries whose colors are appealing to customers.The V.darrowii reference genome,together with the unique traits of this species,including its diploid genome,short vegetative phase,and high compatibility in hybridization with other blueberries,make V.darrowii a potential research model for blueberry species.

关键词： Vaccinium darrowii blueberry genome sequence cuticle subtropical adaptation

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Dissecting Abscisic Acid Signaling Pathways Involved in Cuticle Formation

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Molecular Plant 2016年第6期9卷 926-938页

作者： Fuqiang Cui Mikael Brosche Mikko T. Lehtonen Ali Amiryousefi Enjun Xu Matleena Punkkinen Jari P.T. Valkonen Hiroaki Fujii kirk overmyer Division of Plant Biology Viikki Plant Science Centre Department of Biosciences University of Helsinki 00014 Helsinki Finland Department of Agricultural Sciences University of Helsinki PO Box 27 00014 Helsinki Finland Department of Biochemistry Molecular Plant Biology University of Turku Turku 20014 Finland Institute of Technology University of Tartu Nooruse 1 Tartu 50411 Estonia Present address: Institute of Botany The Chinese Academy of Sciences Beijing China

The cuticle is the outer physical barrier of aerial plant surfaces and an important interaction point between plants and the environment. Many environmental stresses affect cuticle formation, yet the regulatory pathways involved remain undefined. We used a genetics and gene expression analysis in Arabidopsis thaliana to define an abscisic acid （ABA） signaling loop that positively regulates cuticle formation via the core ABA signaling pathway, including the PYR/PYL receptors, PP2C phosphatase, and SNF1-Related Protein Kinase （SnRK） 2.21SnRK2.3/SnRK2.6. Downstream of the SnRK2 kinases, cuticle formation was not regulated by the ABA-responsive element-binding transcription factors but rather by DEWAX, MYB16, MYB94, and MYB96. Additionally, low air humidity increased cuticle formation independent of the core ABA pathway and cell death/reactive oxygen species signaling attenuated expression of cuticle-biosynthesis genes. In Physcornitrella patens, exogenous ABA suppressed expression of cuticle- related genes, whose Arabidopsis orthologs were ABA-induced. Hence, the mechanisms regulating cuticle formation are conserved but sophisticated in land plants. Signaling specifically related to cuticle deficiency was identified to play a major role in the adaptation of ABA signaling pathway mutants to increased humidity and in modulating their immunity to Botrytis cinerea in Arabidopsis. These results define a cuticle-specific downstream branch in the ABA signaling pathway that regulates responses to the external environment.

关键词： cuticle abscisic acid Arabidopsis Physcomitrella Botrytis land plants

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