基因组学与应用生物学

参考文献

高胜寒，禹海英，吴双阳，等，2018.复杂基因组测序技术研究进展.遗传，40(11):944-963.[GAO S H,YU H Y,WU S Y,et al.,2018.Advances of sequencing and assembling technologies for complex genomes.Hereditas,40(11):944-963.]

金效华，彭建生，雷超铭，2019.中国兰花精彩的生命世界.森林与人类，(11):12-27.[JIN X H,PENG J S,LEI C M,2019.Wonderful life world of orchids in China.Forest & Humankind,(11):12-27.]

连青龙，2018.中国花卉产业的发展现状、 趋势和战略.农业工程技术，38(13):28-35.[LIAN Q L,2018.Current situation,trend and strategy of chinese floral industry.Agricultural Engineering Technology,38(13):28-35.]

陶传喜，2008.大连市花卉产业的地位与作用.黑龙江生态工程职业学院学报，21(3):11-12.[TAO C X,2008.The status and function of flower industry in Dalian.Journal of Heilongjiang Vocational Institute of Ecological Engineering,21(3):11-12.]

BIN T T,KEVIN L,CHERN H Y,et al.,2017.The draft genome of tropical fruit durian (Durio zibethinus).Nat Genet.,49(11):1633-1641.

CAI J,LIU X,VANNESTE K,et al.,2015.The genome sequence of the orchid Phalaenopsis equestris.Nat.Genet.,47(1):65-72.

CHANG D N,GAO S J,ZHOU G P,et al.,2022.The chromosome-level genome assembly of Astragalus sinicus and comparative genomic analyses provide new resources and insights for understanding legume-rhizobial interactions.Plant Commun.,3(2):100263.

CHUNG O,KIM J,BOLSER D,et al.,2022.A chromosome-scale genome assembly and annotation of the spring orchid (Cymbidium goeringii).Mol.Ecol.Resour.,22(3):1168-1177.

CUI X Y,MENG F Q,PAN X,et al.,2022.Chromosome-level genome assembly of Aristolochia contorta provides insights into the biosynthesis of benzylisoquinoline alkaloids and aristolochic acids.Hortic Res,9:uhac005.

DONG S S,LIU M,LIU Y,et al.,2021.The genome of Magnolia biondii Pamp.provides insights into the evolution of Magnoliales and biosynthesis of terpenoids.Hortic.Res.,8:38.

GUO X,FANG D M,SAHU S K,et al.,2021.Chloranthus genome provides insights into the early diversification of angiosperms.Nat.Commun.,12:6930.

HE S M,DONG X A,ZHANG G H,et al.,2021.High quality genome of Erigeron breviscapus provides a reference for herbal plants in Asteraceae.Mol.Ecol.Resour.,21(1):153-169.

HIBRAND SAINT-OYANT L,RUTTINK T,HAMAMA L,et al.,2018.A high-quality genome sequence of Rosa chinensis to elucidate ornamental traits.Nat.Plants,4(7):473-484.

HU Y L,MA D N,NING S J,et al.,2021.High-quality genome of the medicinal plant Strobilanthes cusia provides insights into the biosynthesis of indole alkaloids.Front.Plant Sci.,12:742420.

JAILLON O,AURY J M,NOEL B,et al.,2007.The grapevine genome sequence suggests ancestral hexaploidization in major angiosperm phyla.Nature,449(7161):463-467.

JIAO Y N,WICKETT N J,AYYAMPALAYAM S,et al.,2011.Ancestral polyploidy in seed plants and angiosperms.Nature,473(7345):97-100.

LAM E T,HASTIE A,LIN C,et al.,2012.Genome mapping on nanochannel arrays for structural variation analysis and sequence assembly.Nat.Biotechnol.,30(8):771-776.

LEI W X,WANG Z F,CAO M,et al.,2022.Chromosome-level genome assembly and characterization of Sophora Japonica.DNA Res.,29(3):dsac009.

LI F,GAO Y A,JIN C L,et al.,2022.The chromosome-level genome of Gypsophila paniculata reveals the molecular mechanism of floral development and ethylene insensitivity.Hortic.Res.,9:uhac176.

LI T Z,CHEN L J,WANG M,et al.,2019.The complete chloroplast genome of Vanilla shenzhenica (Orchidaceae).Mitochondrial DNA B,4(2):2610-2611.

LI J L,SHEN J T,WANG R,et al.,2023.The nearly complete assembly of the Cercis chinensis genome and Fabaceae phylogenomic studies provide insights into new gene evolution.Plant Commun.,4(1):100422.

LIANG Y W,LI F,GAO Q,et al.,2022.The genome of Eustoma grandiflorum reveals the whole-genome triplication event contributing to ornamental traits in cultivated lisianthus.Plant Biotechnol.J.,20(10):1856-1858.

LIAO X Z,YE Y J,ZHANG X N,et al.,2022.The genomic and bulked segregant analysis of Curcuma alismatifolia revealed its diverse bract pigmentation.aBIOTECH,3(3):178-196.

LIEBERMAN-AIDEN E,VAN BERKUM N L,WILLIAMS L,et al.,2009.Comprehensive mapping of long-range interactions reveals folding principles of the human genome.Science,326(5950):289-293.

LU M,AN H M,LI L L,2016.Genome survey sequencing for the characterization of the genetic background of Rosa roxburghii tratt and leaf ascorbate metabolism genes.PLoS ONE,11(2):e0147530.

MA H,LIU Y B,LIU D T,et al.,2021.Chromosome-level genome assembly and population genetic analysis of a critically endangered rhododendron provide insights into its conservation.Plant J.,107(5):1533-1545.

NAKAMURA N,HIRAKAWA H,SATO S,et al.,2018.Genome structure of Rosa multiflora,a wild ancestor of cultivated roses.DNA Res,25(2):113-121.

NAKANO M,HIRAKAWA H,FUKAI E,et al.,2021.A chromosome-level genome sequence of Chrysanthemum seticuspe,a model species for hexaploid cultivated Chrysanthemum.Commun.Biol.,4(1):1167.

NIE S A,ZHAO S W,SHI T L,et al.,2023.Gapless genome assembly of azalea and multi-omics investigation into divergence between two species with distinct flower color.Hortic.Res.,10(1):uhac241.

NIU Z T,ZHU F,FAN Y J,et al.,2021.The chromosome-level reference genome assembly for Dendrobium officinale and its utility of functional genomics research and molecular breeding study.Acta Pharm.Sin.B,11(7):2080-2092.

RAYMOND O,GOUZY J,JUST J,et al.,2018.The Rosa genome provides new insights into the domestication of modern roses.Nat.Genet.,50(6):772-777.

SEBASTIAN R C W,WANG Z W,YANG X H,et al.,2017.Genome assembly with in vitro proximity ligation data and whole-genome triplication in lettuce.Nat Commun.,8:14953.

SHEN Z G,LI W Y,LI Y L,et al.,2021.The red flower wintersweet genome provides insights into the evolution of magnoliids and the molecular mechanism for tepal color development.Plant J.,108(6):1662-1678.

SONG C,LIU Y F,SONG A P,et al.,2018.The Chrysanthemum nankingense genome provides insights into the evolution and diversification of Chrysanthemum flowers and medicinal traits.Mol.Plant,11(12):1482-1491.

SUN W H,LI Z,XIANG S A,et al.,2021.The Euscaphis japonica genome and the evolution of malvids.Plant J.,108(5):1382-1399.

TUSKAN G A,DIFAZIO S,JANSSON S,et al.,2006.The genome of black cottonwood,Populus trichocarpa (Torr.& Gray).Science,313(5793):1596-1604.

WANG P J,FANG J P,LIN H Z,et al.,2022b.Genomes of single- and double-petal jasmines (Jasminum sambac) provide insights into their divergence time and structural variations.Plant Biotechnol.J.,20(7):1232-1234.

WANG X Y,GAO Y A,WU X P,et al.,2021.High-quality evergreen azalea genome reveals tandem duplication-facilitated low-altitude adaptability and floral scent evolution.Plant Biotechnol.J.,19(12):2544-2560.

WANG Z Q,XUE J Y,HU S Y,et al.,2022a.The genome of Hibiscus hamabo reveals its adaptation to saline and waterlogged habitat.Hortic.Res.,9:uhac067.

XU K W,WEI X F,LIN C X,et al.,2022.The chromosome-level holly (Ilex latifolia) genome reveals key enzymes in triterpenoid saponin biosynthesis and fruit color change.Front.Plant Sci.,13:982323.

YANG X L,YUE Y Z,LI H Y,et al.,2018.The chromosome-level quality genome provides insights into the evolution of the biosynthesis genes for aroma compounds of Osmanthus fragrans.Hortic.Res.,5:72.

YANG Y Z,LIU X D,SHI X Q,et al.,2022.A high-quality,chromosome-level genome provides insights into determinate flowering time and color of cotton rose (Hibiscus mutabilis).Front.Plant Sci.,13:818206.

YUAN J H,JIANG S J,JIAN J B,et al.,2022.Genomic basis of the giga-chromosomes and giga-genome of tree peony Paeonia ostii.Nat Commun.,13(1):7328.

ZANG F Q,MA Y,TU X L,et al.,2021.A high-quality chromosome-level genome of wild Rosa rugosa.DNA Res.,28(5):dsab017.

ZHANG G Q,LIU K W,LI Z,et al.,2017.The Apostasia genome and the evolution of orchids.Nature,549(7672):379-383.

ZHANG G Q,XU Q,BIAN C,et al.,2016.The Dendrobium catenatum Lindl.genome sequence provides insights into polysaccharide synthase,floral development and adaptive evolution.Sci.Rep.,6:19029.

ZHANG L S,CHEN F,ZHANG X T,et al.,2020.The water lily genome and the early evolution of flowering plants.Nature,577(7788):79-84.

ZHANG Q X,CHEN W B,SUN L D,et al.,2012.The genome of Prunus mume.Nat.Commun.,3:1318.

ZHANG Q X,ZHANG H,SUN L D,et al.,2018.The genetic architecture of floral traits in the woody plant Prunus mume.Nat.Commun.,9:1702.

ZHANG T W,ZHANG X W,HU S N,et al.,2011.An efficient procedure for plant organellar genome assembly,based on whole genome data from the 454 GS FLX sequencing platform.Plant Meth.,7:38.

ZHAO Y B,YIN J L,GUO H Y,et al.,2015.The complete chloroplast genome provides insight into the evolution and polymorphism of Panax ginseng.Front.Plant Sci.,5:696.

ZHENG T C,LI P,LI L L,et al.,2021.Research advances in and prospects of ornamental plant genomics.Hortic.Res.,8:65.

ZHENG T C,LI P,ZHUO X K,et al.,2022.The chromosome-level genome provides insight into the molecular mechanism underlying the tortuous-branch phenotype of Prunus mume.N.Phytol.,235(1):141-156.

ZHONG Y,CHEN Y,ZHENG D J,et al.,2022.Chromosomal-level genome assembly of the orchid tree Bauhinia variegata (Leguminosae;Cercidoideae) supports the allotetraploid origin hypothesis of Bauhinia.DNA Res,29(2):dsac012.