峨眉山地区杨叶木姜子群体遗传多样性研究
|
摘要
杨叶木姜子在中医药、天然香精香料、趋避剂等领域具有重要应用价值,但其分布地域狭窄,仅在四川省部分地区分布,严重影响杨叶木姜子的开发和利用。本研究以四川盆地西南边缘峨眉山地带的杨叶木姜子为材料,在峨眉山全分布区内根据地理位置和海拔高度的差异选择7个不同区域采集到84个样本,利用简化基因组测序(GBS)技术对其进行遗传多样性分析。基于GBS文库,共检测获得到48795个SNP位点,主要变异来源于内含子区域(47.69%)和基因间区(30.71%)。系统进化树分析、主成分分析和群体结构分析均显示7个杨叶木姜子居群聚类到3个大群体。这3个群体分别来自不同的祖先,分别位于峨眉山以金顶为中心向外延伸的2条主要山脉和峨眉山断层向外延伸的山谷区域中,表明峨眉山区地理差异是造成遗传多样性的主要因素。3个群体平均观测杂合度(Ho)为0.27218,平均期望杂合度(He)为0.24596。群体内变异百分率达到96.28%,而群体间变异仅为3.72%。结果表明,峨眉山杨叶木姜子群体间具有较低的遗传多样性水平,但其在群体内具有较高的核苷酸多样性,变异主要来源于群体内变异。研究结果为杨叶木姜子遗传育种和物种多样性保护提供依据,在家系选择方面需注意群体内大量采样,种质资源保存应尽量选择较低海拔。
Litsea populifolia(Hemsl.)Gamble,a deciduous arbor of Lauraceae,has potential and extensive application in Traditional Chinese Medicine(TCM),cosmetics and edible essence.However,this species distributes in a narrow geographical region(restricted in Sichuan province,China),which seriously prohibits the exploitation and utilization of L.populifolia.(Hemsl.)Gamble.Understanding the genetic diversity of populations among L.populifolia(Hemsl.)Gamble is urgently necessary and helpful for the future breeding and diversity conservation.In this study,the genetic diversity of 84 leaf samples,which were collected from 7 different regions in Mount emei area,was analyzed by genotyping-by-sequencing(GBS)technique.After the construction of GBS library using standard pipeline,we identified 48795 SNP sites globally,47.69% and 30.71% of which were located in intronic regions and intergenic regions,respectively.According to the phylogenetic tree,principal components and population structure analysis,seven subgroups of samples were clustered into three clusters.The average of Ho and He was 0.27218 and 0.24596,respectively.As a result of ANOVA,the percentage of intragroup variation reached 96.28%,while inter-group variation was only 3.72%.These results indicated that regional divergence issued the main factor of genetic diversity among L.populifolia(Hemsl.)Gamble in Emei Mountain,and the different altitudes in high altitude area also affected the genetic diversity of intra-population.The high nucleotide diversity in the populations and the high percentage of intra-group variation illustrated that genetic variation of L.populifolia(Hemsl.)Gamble in Emei Mountain mainly exists in intra-population.The characteristics of dioecism and cross-pollination in L.populifolia(Hemsl.)Gamble caused higher gene flow.However,due to the fragmentation of its habitat and the complex vertical climate,there was a low gene ?ow between the groups,causing obvious population differentiation and the variation mainly within the populations.Our data provided a fundamental basis for the genetic breeding and diversity conservation of L.populifolia(Hemsl.)Gamble.In terms of family line selection,a large number of samples should be included in the population,and the preservation of germplasm resources should be at a lower altitude as far as possible.
Litsea populifolia(Hemsl.)Gamble,a deciduous arbor of Lauraceae,has potential and extensive application in Traditional Chinese Medicine(TCM),cosmetics and edible essence.However,this species distributes in a narrow geographical region(restricted in Sichuan province,China),which seriously prohibits the exploitation and utilization of L.populifolia.(Hemsl.)Gamble.Understanding the genetic diversity of populations among L.populifolia(Hemsl.)Gamble is urgently necessary and helpful for the future breeding and diversity conservation.In this study,the genetic diversity of 84 leaf samples,which were collected from 7 different regions in Mount emei area,was analyzed by genotyping-by-sequencing(GBS)technique.After the construction of GBS library using standard pipeline,we identified 48795 SNP sites globally,47.69% and 30.71% of which were located in intronic regions and intergenic regions,respectively.According to the phylogenetic tree,principal components and population structure analysis,seven subgroups of samples were clustered into three clusters.The average of Ho and He was 0.27218 and 0.24596,respectively.As a result of ANOVA,the percentage of intragroup variation reached 96.28%,while inter-group variation was only 3.72%.These results indicated that regional divergence issued the main factor of genetic diversity among L.populifolia(Hemsl.)Gamble in Emei Mountain,and the different altitudes in high altitude area also affected the genetic diversity of intra-population.The high nucleotide diversity in the populations and the high percentage of intra-group variation illustrated that genetic variation of L.populifolia(Hemsl.)Gamble in Emei Mountain mainly exists in intra-population.The characteristics of dioecism and cross-pollination in L.populifolia(Hemsl.)Gamble caused higher gene flow.However,due to the fragmentation of its habitat and the complex vertical climate,there was a low gene ?ow between the groups,causing obvious population differentiation and the variation mainly within the populations.Our data provided a fundamental basis for the genetic breeding and diversity conservation of L.populifolia(Hemsl.)Gamble.In terms of family line selection,a large number of samples should be included in the population,and the preservation of germplasm resources should be at a lower altitude as far as possible.
引文
[1]中国科学院中国植物志委员会.中国植物志.第三十一卷.北京:科学出版社,1982:261Chinese Botanical Committee of the Chinese Academy of Sciences.Flora of China.Volume 31.Beijing:Science Press,1982:261
[2]万德光,陈幼竹.杨叶木姜子果实的挥发油成分分析.天然产物研究与开发,2004,16(2):136-137Wan D G,Chen Y Z.Analysis of the chemical constituents of the volatile oil from the fruits of Litsea populifolia.Natural Product Research and Development,2004,16(2):136-137
[3]《全国中草药汇编》编写组.全国中草药汇编.上册.北京:人民卫生出版社,1978Editors of National Compilation of Chinese Herbal Medicines.National Compilation of Chinese Herbal Medicines.Volume1.Beijing:People′s Medical Publishing House,1978
[4]陈幼竹.木姜子属主要药用植物的品种品质研究.成都:成都中医药大学,2004Chen Y Z.Studies on the botanical origins and qualities of medicinal Litsea Lam.Chengdu:Chengdu University of Chinese Medicine,2004
[5]陈幼竹,徐正莉.杨叶木姜子茎皮提取物抗菌作用研究.亚太传统医药,2013,9(2):28-29Chen Y Z,Xu Z L.Study on the antibacterial effect of stem and bark extracts from Litsea populifolia.Asia-Pacific Traditional Medicine,2013,9(2):28-29
[6]张利军,曹挥.杨叶木姜子对桃粉蚜的忌避作用研究.山西果树,2008(4):20-21Zhang L J,Cao H.Study on the repellent effect of Litsea populifolia(Hemsl.)gamble against Hyalopterus arundimis Fabricius.Shanxi Fruits,2008(4):20-21
[7]Wan D,Chen Y.Analysis of the chemical constituents of the volatile oil from the fruits of Litsea populifolia.Natural Product Research&Development,2004,16:136-137
[8]熊莉丽,王万军,谭睿,李迪强,茆灿泉.峨眉山车前草、水辣蓼及天名精RAPD遗传多样性分析.现代农业科学,2009(6):31-33Xiong L L,Wang W J,Tan R,Li D Q,Mao C Q.Plantago Mt.Emei hot water and the days were fine polygonum rapd analysis of genetic diversity.Modern Agricultural Sciences,2009(6):31-33
[9]袁志发.群体遗传学、进化与熵.北京:科学出版社,2011Yuan Z F.Population Genetics,Evolution and the Entropy.Beijing:Science Press,2011
[10]Elshire R J,Glaubitz J C,Sun Q,Poland J A,Kawamoto K,Buckler E S,Mitchell1 S E.A robust,simple genotyping-bysequencing(GBS)approach for high diversity species.PLoSOne,2011,6(5):e19379
[11]Riedelsheimer C,Lisec J,Czedik-Eysenberg A,Sulpice R,Flis A,Grieder C,Altmann T,Stitt M,Willmitzer L,Melchinger AE.Genome-wide association mapping of leaf metabolic profiles for dissecting complex traits in maize.Proceedings of the National Academy of Sciences of the United States of America,2012,109(23):8872-8877
[12]王婷,吴登俊.微卫星分子标记分析四川绵羊群体遗传多样性.中国畜牧杂志,2018(4):36-41Wang T,Wu D J.Analysis of the genetic dversity in sichuan sheep population by microsatellite molecular markers.Chinese Journal of Animal Science,2018(4):36-41
[13]李斌,顾万春.白皮松保育遗传学--天然群体遗传多样性评价与保护策略.林业科学,2005,41(1):57-64Li B,Gu W C.Conservation genetics of Pinus bungeanaEvaluation and conservation of natural populations′genetic diversity.Cientia Silvae Sinicae,2005,41(1):57-64
[14]王海平,Philipp W.Simon,李锡香,程嘉琪,沈镝,宋江萍,邱杨,张晓辉.中国大蒜种质资源遗传多样性和群体遗传结构分析.中国农业科学,2012,45(16):3318-3329Wang H P,Simon P W,Li X X,Cheng J Q,Shen D,Song JP,Qiu Y,Zhang X H.Diversity and genetic structure of garlic(Allium sativum L.)germplasm resource in China.Scientia Agricultura Sinica,2012,45(16):3318-3329
[15]朱晓帆,蒋文举,朱联锡,金燕.峨眉山环境现状研究.四川环境,1997(2):9-17Zhu X F,Jiang W J,Zhu L X,Jin Y.Study on present environmental situation of the Emei Mountain.Sichuan Environment,1997(2):9-17
[16]赵伯礼,陈荣华.峨眉山.成都:四川人民出版社,1980Zhao B L,Chen R H.The Emei Mountain.Chengdu:Sichuan People′s Publishing House,1980
[17]朱建华,潘丽梅,秦献泉,彭宏祥,王忆,韩振海.不同生态类型龙眼种质亲缘关系的ISSR分析.植物遗传资源学报,2013,14(1):65-69Zhu J H,Pan L M,Qin X Q,Peng H X,Wang Y,Han ZH.Analysis on genetic relations in different ecotypes of longan(Dimocarpus longan)germplasm resources by ISSR markers.Journal of Plant Genetic Resources,2013,14(1):65-69
[18]邱显钦,唐开学,王其刚,蹇洪英,李树发,邵珠华,张颢.云南长尖叶蔷薇自然居群遗传多样性分析.植物遗传资源学报,2013,14(1):85-90Qiu X Q,Tang K X,Wang Q G,Jian H Y,Li S F,Shao ZH,Zhang Y.Genetic diversity analysis of populations of Rosa longicuspis in Yunnan.Journal of Plant Genetic Resources,2013,14(1):85-90
[19]Shen D F,Bo W H,Xu F,Wu R L.Genetic diversity and population structure of the Tibetan poplar(Populus szechuanica var.tibetica)along an altitude gradient.Bmc Genetics,2014,15(Suppl 1):S11
[20]徐刚标.植物群体遗传学.北京:科学出版社,2009Xu G B.Plant population genetics.Beijing:Science Press,2009
[21]Templeton A R,Shaw K,Routman E,Davis S K.The genetic consequences of habitat fragmentation.Annals of the Missouri Botanical Garden,1990,77(1):13-27
[22]Saunders D A,Hobbs R J,Margules C R.Biological consequences of ecosystem fragmentation:a review.Conservation Biology,1991,5(1):18-32
[23]Brown T,Young A,Boyle T.The population genetic consequences of habitat fragmentation for plants.Trends in Ecology&Evolution,1996,11(10):413-418
[24]Murawski D A,Hamrick J L.The effect of the density of flowering individuals on the mating systems of nine tropical tree species.Heredity,1991,67(2):184
[25]Murawski D A,Hamrick J L.The mating system of cavanillesia platanifolia under extremes of flowering-tree density:A Test of Predictions.Biotropica,1992,24(1):99-101
[26]孙林.中国特有珍稀植物天目木姜子遗传多样性与亲缘地理学研究.南京:南京大学,2014Sun L.The genetic diversity and phylogeography of Litsea auriculate,an endemic and rare plant in China.Nanjing:Nanjing University,2014
[27]陈俊秋,慈秀芹,李巧明,李捷.樟科濒危植物思茅木姜子遗传多样性的ISSR分析.生物多样性,2006,14(5):410-420Chen J Q,Ci X Q,Li Q M,Li J.Genetic diversity of Litsea szemaois,an endangered species endemic to China,detected by inter-simple sequence repeat(ISSR).Biodiversity Science,2006,14(5):410-420
[28]王中生,安树青,冷欣,丁方明,郑建伟,陈琳.岛屿植物舟山新木姜子居群遗传多样性的RAPD分析.生态学报,2004,24(3):414-422Wang Z S,An S Q,Leng X,Ding F M,Zheng J W,Chen L.Population genetic diversity of the insular plant Neolitsea sericea based onrandom amplified polymorphic DNA(RAPD).Acta Ecologica Sinica,2004,24(3):414-422
[29]段义忠,王建武,杜忠毓,亢福仁.基于SLAF-seq简化基因组技术的沙冬青SNP位点开发及遗传分析.植物研究,2018,38(1):141-147Duan Y Z,Wang J W,Du Z Y,Kang F R.SNP sites developed by specific length amplification fragment sequencing(SLAF-seq)and genetic analysis in Ammopitanthus mongolicus.Bulletin of Botanical Research,2018,38(1):141-147
[2]万德光,陈幼竹.杨叶木姜子果实的挥发油成分分析.天然产物研究与开发,2004,16(2):136-137Wan D G,Chen Y Z.Analysis of the chemical constituents of the volatile oil from the fruits of Litsea populifolia.Natural Product Research and Development,2004,16(2):136-137
[3]《全国中草药汇编》编写组.全国中草药汇编.上册.北京:人民卫生出版社,1978Editors of National Compilation of Chinese Herbal Medicines.National Compilation of Chinese Herbal Medicines.Volume1.Beijing:People′s Medical Publishing House,1978
[4]陈幼竹.木姜子属主要药用植物的品种品质研究.成都:成都中医药大学,2004Chen Y Z.Studies on the botanical origins and qualities of medicinal Litsea Lam.Chengdu:Chengdu University of Chinese Medicine,2004
[5]陈幼竹,徐正莉.杨叶木姜子茎皮提取物抗菌作用研究.亚太传统医药,2013,9(2):28-29Chen Y Z,Xu Z L.Study on the antibacterial effect of stem and bark extracts from Litsea populifolia.Asia-Pacific Traditional Medicine,2013,9(2):28-29
[6]张利军,曹挥.杨叶木姜子对桃粉蚜的忌避作用研究.山西果树,2008(4):20-21Zhang L J,Cao H.Study on the repellent effect of Litsea populifolia(Hemsl.)gamble against Hyalopterus arundimis Fabricius.Shanxi Fruits,2008(4):20-21
[7]Wan D,Chen Y.Analysis of the chemical constituents of the volatile oil from the fruits of Litsea populifolia.Natural Product Research&Development,2004,16:136-137
[8]熊莉丽,王万军,谭睿,李迪强,茆灿泉.峨眉山车前草、水辣蓼及天名精RAPD遗传多样性分析.现代农业科学,2009(6):31-33Xiong L L,Wang W J,Tan R,Li D Q,Mao C Q.Plantago Mt.Emei hot water and the days were fine polygonum rapd analysis of genetic diversity.Modern Agricultural Sciences,2009(6):31-33
[9]袁志发.群体遗传学、进化与熵.北京:科学出版社,2011Yuan Z F.Population Genetics,Evolution and the Entropy.Beijing:Science Press,2011
[10]Elshire R J,Glaubitz J C,Sun Q,Poland J A,Kawamoto K,Buckler E S,Mitchell1 S E.A robust,simple genotyping-bysequencing(GBS)approach for high diversity species.PLoSOne,2011,6(5):e19379
[11]Riedelsheimer C,Lisec J,Czedik-Eysenberg A,Sulpice R,Flis A,Grieder C,Altmann T,Stitt M,Willmitzer L,Melchinger AE.Genome-wide association mapping of leaf metabolic profiles for dissecting complex traits in maize.Proceedings of the National Academy of Sciences of the United States of America,2012,109(23):8872-8877
[12]王婷,吴登俊.微卫星分子标记分析四川绵羊群体遗传多样性.中国畜牧杂志,2018(4):36-41Wang T,Wu D J.Analysis of the genetic dversity in sichuan sheep population by microsatellite molecular markers.Chinese Journal of Animal Science,2018(4):36-41
[13]李斌,顾万春.白皮松保育遗传学--天然群体遗传多样性评价与保护策略.林业科学,2005,41(1):57-64Li B,Gu W C.Conservation genetics of Pinus bungeanaEvaluation and conservation of natural populations′genetic diversity.Cientia Silvae Sinicae,2005,41(1):57-64
[14]王海平,Philipp W.Simon,李锡香,程嘉琪,沈镝,宋江萍,邱杨,张晓辉.中国大蒜种质资源遗传多样性和群体遗传结构分析.中国农业科学,2012,45(16):3318-3329Wang H P,Simon P W,Li X X,Cheng J Q,Shen D,Song JP,Qiu Y,Zhang X H.Diversity and genetic structure of garlic(Allium sativum L.)germplasm resource in China.Scientia Agricultura Sinica,2012,45(16):3318-3329
[15]朱晓帆,蒋文举,朱联锡,金燕.峨眉山环境现状研究.四川环境,1997(2):9-17Zhu X F,Jiang W J,Zhu L X,Jin Y.Study on present environmental situation of the Emei Mountain.Sichuan Environment,1997(2):9-17
[16]赵伯礼,陈荣华.峨眉山.成都:四川人民出版社,1980Zhao B L,Chen R H.The Emei Mountain.Chengdu:Sichuan People′s Publishing House,1980
[17]朱建华,潘丽梅,秦献泉,彭宏祥,王忆,韩振海.不同生态类型龙眼种质亲缘关系的ISSR分析.植物遗传资源学报,2013,14(1):65-69Zhu J H,Pan L M,Qin X Q,Peng H X,Wang Y,Han ZH.Analysis on genetic relations in different ecotypes of longan(Dimocarpus longan)germplasm resources by ISSR markers.Journal of Plant Genetic Resources,2013,14(1):65-69
[18]邱显钦,唐开学,王其刚,蹇洪英,李树发,邵珠华,张颢.云南长尖叶蔷薇自然居群遗传多样性分析.植物遗传资源学报,2013,14(1):85-90Qiu X Q,Tang K X,Wang Q G,Jian H Y,Li S F,Shao ZH,Zhang Y.Genetic diversity analysis of populations of Rosa longicuspis in Yunnan.Journal of Plant Genetic Resources,2013,14(1):85-90
[19]Shen D F,Bo W H,Xu F,Wu R L.Genetic diversity and population structure of the Tibetan poplar(Populus szechuanica var.tibetica)along an altitude gradient.Bmc Genetics,2014,15(Suppl 1):S11
[20]徐刚标.植物群体遗传学.北京:科学出版社,2009Xu G B.Plant population genetics.Beijing:Science Press,2009
[21]Templeton A R,Shaw K,Routman E,Davis S K.The genetic consequences of habitat fragmentation.Annals of the Missouri Botanical Garden,1990,77(1):13-27
[22]Saunders D A,Hobbs R J,Margules C R.Biological consequences of ecosystem fragmentation:a review.Conservation Biology,1991,5(1):18-32
[23]Brown T,Young A,Boyle T.The population genetic consequences of habitat fragmentation for plants.Trends in Ecology&Evolution,1996,11(10):413-418
[24]Murawski D A,Hamrick J L.The effect of the density of flowering individuals on the mating systems of nine tropical tree species.Heredity,1991,67(2):184
[25]Murawski D A,Hamrick J L.The mating system of cavanillesia platanifolia under extremes of flowering-tree density:A Test of Predictions.Biotropica,1992,24(1):99-101
[26]孙林.中国特有珍稀植物天目木姜子遗传多样性与亲缘地理学研究.南京:南京大学,2014Sun L.The genetic diversity and phylogeography of Litsea auriculate,an endemic and rare plant in China.Nanjing:Nanjing University,2014
[27]陈俊秋,慈秀芹,李巧明,李捷.樟科濒危植物思茅木姜子遗传多样性的ISSR分析.生物多样性,2006,14(5):410-420Chen J Q,Ci X Q,Li Q M,Li J.Genetic diversity of Litsea szemaois,an endangered species endemic to China,detected by inter-simple sequence repeat(ISSR).Biodiversity Science,2006,14(5):410-420
[28]王中生,安树青,冷欣,丁方明,郑建伟,陈琳.岛屿植物舟山新木姜子居群遗传多样性的RAPD分析.生态学报,2004,24(3):414-422Wang Z S,An S Q,Leng X,Ding F M,Zheng J W,Chen L.Population genetic diversity of the insular plant Neolitsea sericea based onrandom amplified polymorphic DNA(RAPD).Acta Ecologica Sinica,2004,24(3):414-422
[29]段义忠,王建武,杜忠毓,亢福仁.基于SLAF-seq简化基因组技术的沙冬青SNP位点开发及遗传分析.植物研究,2018,38(1):141-147Duan Y Z,Wang J W,Du Z Y,Kang F R.SNP sites developed by specific length amplification fragment sequencing(SLAF-seq)and genetic analysis in Ammopitanthus mongolicus.Bulletin of Botanical Research,2018,38(1):141-147
© 2004-2018 中国地质图书馆版权所有 京ICP备05064691号 京公网安备11010802017129号 地址：北京市海淀区学院路29号 邮编：100083 电话：办公室：(+86 10)66554848；文献借阅、咨询服务、科技查新：66554700 |