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中国科学院昆明植物研究所知识管理系统
Knowledge Management System of Kunming Institute of Botany,CAS
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GST,p < 0.001) and low levels of seed-based gene flow. C. debaoensis (Cycadaceae) is an endangered species restricted to the border of Guangxi and Yunnan province in southwest China. This species has been classified into two types: sand and karst, according to the soil matrix they grow on. We examined chloroplast sequence variation of the cpDNA sequences from 11 populations of this species. Significant population genetic differentiation was detected (GST= 0.684 and FST = 0.74160). There was marked genetic differentiation between populations in the sand and karst regions and no expansion was detected. Climate changes during glacial periods have had significant effects on the current distribution of cycads. The molecular phylogenetic data, together with the geographic distribution of the haplotypes, suggest that C. debaoensis experienced range contraction during glacial periods, and that the current populations are still confined to the original refugia in southwest China which have favorable habitats in glacial period. These results imply that small refugia were maintained in both sand and karst regions during the LGM (last glacial maximum). This species had no postglacial recolonization and only stayed in these refugia up to now. The low within-population diversity of C. debaoensis suggests that there were strong bottleneck events or founder effects within each separate region during the Quaternary climatic oscillations. Relatively high genetic and haplotype diversities were detected in the newly discovered populations, which located at intermediate locality of sand regions and had morphological variation; this is probably the consequence of the admixture of different haplotypes colonizing the area from separate sources. C. micholitzii occurs in the Annan Highlands in central Vietnam near the Laos border. C. bifida occurs in North Vietnam; its distribution extends across the border into adjacent localities in Guangxi and Yunnan in China. For the comparability between them,theywere considered as the same species C. micholitzii by many academicians. The cpDNA sequences from 11 populations showed that these very controversial species, C. micholitzii and C. bifida, is paraphyletic and should belong to the same species C. micholitzii. AMOVA analysis showed that the component of among-population within region/species (76.46%) was unexpectedly larger than the among-species/region component (14.97%), which also indicates that there is no justification for recognizing two species as C. micholitzii and C. bifida. This hypothesis was also supported by the geological data, especially the neotectonic history of the indo-china block, which started to move south since Oligocene and cause the geographic isolation of these two groups. Therefore, the most likely explanation to the phenotypic similarities between these two groups may be the retention of ancestral polymorphisms in the paraphyletic group due to incomplete lineage sorting. Furthermore, the similarities may also be ascribed to pollen-mediated gene flow among geographically proximate populations and/or phenotypic convergence under similar selection schemes in the same region. C.micholitzi had the higest genetic diversity (HT = 0.980,) and genetic differentiation (GST = 0.830, NST = 0.915) among the C. micholitzii complex. The high genetic diversity might be attributed to its long evolutionary history, highly diverse habitats. The ineffective mode of seed dispersal and dramatic neotectonic movement in the distribution range of this species could result in the high genetic differentiation. 2. Phylogeographic analysis based on nuclear ribosomal sequences, We sequenced the nrDNA ITS in all 27 populations sampled, 7 haplotypes were identified, among which C. micholitzii had 6, while C. multipinnata, C. longipetiolula and C. debaoensis shared the remaining one. Compared to chloroplast genes, nuclear genes had higher correlation between genetic and geographical distance, but lower interspecies differentiation (54.42% vs 25.24%). Phylogeographical structure of C. micholitzii and C.bifida based on ITS Variation was consistent with the morphology differentiation. This similar in nuclear gene should be ascribed to pollen-mediated gene flow among geographically proximate populations.Long-distance gene flow over the two groups was clearly interrupted, which brought on the nrDNA genetic differenciation between the geographically isolated groups, to a certain extent affected the morphological variation. 3. Interspecies relationships among Cycas micholitzii complex, We analysed chloroplast sequence variation of the atpB-rbcL and psbA-trnH intergenic spacers in 27 populations sampled of C. micholitzii complex, AMOVA analysis showed that the component of among-species/region component (59.21%). However, phylogenic analysis showed that the haplotypes of C. micholitzii complex couldn`t grouped into four clusters closely corresponding to the narrowly defined C. micholitzi, C. multipinnata, C. debaoensis and C. longipetiolula. We concluded that the conflict may result from several factors: firstly incomplete lineage sorting of C. micholitzii; secondly hybridization/introgression of sympatrically cycads, which would be supported by evidence base on nrDNA ITS sequences; thirdly intramolecular recombination in cpDNA of cycads; eventually the neotectonic movement in the distribution range of this species.","jscount":"1","jsurl":"/simple-search?field1=all&rpp=10&accurate=false&advanced=false&sort_by=2&isNonaffiliated=false&search_type=-1&query1=Plastid%2BMarkers&order=desc&&fq=dc.project.title_filter%3ACycas%5C+micholitzii%5C+complex%5C+is%5C+composed%5C+of%5C+5%5C+species%5C%3A%5C+C.%5C+micholitzii%5C+Dyer%2C%5C+C.%5C+bifida%5C+%5C%28Dyer%5C%29%5C+K.%5C+D.%5C+Hill%2CC.%5C+longipetiolula%5C+D.%5C+Y.%5C+Wang%2C%5C+C.%5C+debaoensis%5C+Y.%5C+C.%5C+Zhong%5C+et%5C+C%5C+J.%5C+Chen%2C%5C+C.%5C+multipinnata%5C+C%5C+J.%5C+Chen%5C+et%5C+S.%5C+Y.%5C+Yang%EF%BC%8Cand%5C+distributed%5C+from%5C+southwest%5C+China%5C+to%5C+central%5C+Vietnam%5C+and%5C+eastern%5C+Laos.%5C+Based%5C+on%5C+sequence%5C+data%5C+from%5C+two%5C+maternally%5C+inherited%5C+cpDNA%5C+and%5C+one%5C+biparentally%5C+nuclear%5C+DNA%5C+fragments%2C%5C+our%5C+study%5C+revealed%5C+the%5C+population%5C+genetic%5C+structure%5C+of%5C+C.%5C+micholitzii%5C+complex%5C+and%5C+explored%5C+the%5C+potential%5C+causes.%5C+The%5C+evolutionary%5C+and%5C+demographic%5C+histories%5C+were%5C+investigated.%5C+The%5C+genetic%5C+relationship%5C+among%5C+species%5C+in%5C+the%5C+complex%5C+was%5C+also%5C+clarified.The%5C+results%5C+were%5C+summarized%5C+as%5C+follows%5C%3A%5C+1.%5C+Phylogeographic%5C+analysis%5C+based%5C+on%5C+chloroplast%5C+sequences%EF%BC%8CWe%5C+examined%5C+chloroplast%5C+sequence%5C+variation%5C+of%5C+the%5C+atpB%5C-rbcLand%5C+psbA%5C-trnHintergenic%5C+spacers%5C+in%5C+27%5C+populations%5C+of%5C+C.%5C+micholitzii%5C+complex%2C%5C+recovering%5C+26%5C+haplotypes.%5C+The%5C+average%5C+within%5C-population%5C+diversity%5C+%5C%28HS%5C+%3D%5C+0.140%5C%29%5C+was%5C+low%5C+while%5C+total%5C+diversity%5C+%5C%28HT%5C+%3D%5C+0.911%5C%29%5C+was%5C+high.%5C+Population%5C+differentiation%5C+was%5C+also%5C+high%5C%28GST%5C+%3D%5C+0.846%2C%5C+NST%5C+%3D%5C+0.919%5C%29%2C%5C+indicating%5C+significant%5C+phylogeographical%5C+structure%5C+%5C%28NST%5C+%3E%5C+GST%2Cp%5C+%3C%5C+0.001%5C%29%5C+and%5C+low%5C+levels%5C+of%5C+seed%5C-based%5C+gene%5C+flow.%5C+C.%5C+debaoensis%5C+%5C%28Cycadaceae%5C%29%5C+is%5C+an%5C+endangered%5C+species%5C+restricted%5C+to%5C+the%5C+border%5C+of%5C+Guangxi%5C+and%5C+Yunnan%5C+province%5C+in%5C+southwest%5C+China.%5C+This%5C+species%5C+has%5C+been%5C+classified%5C+into%5C+two%5C+types%5C%3A%5C+sand%5C+and%5C+karst%2C%5C+according%5C+to%5C+the%5C+soil%5C+matrix%5C+they%5C+grow%5C+on.%5C+We%5C+examined%5C+chloroplast%5C+sequence%5C+variation%5C+of%5C+the%5C+cpDNA%5C+sequences%5C+from%5C+11%5C+populations%5C+of%5C+this%5C+species.%5C+Significant%5C+population%5C+genetic%5C+differentiation%5C+was%5C+detected%5C+%5C%28GST%3D%5C+0.684%5C+and%5C+FST%5C+%3D%5C+0.74160%5C%29.%5C+There%5C+was%5C+marked%5C+genetic%5C+differentiation%5C+between%5C+populations%5C+in%5C+the%5C+sand%5C+and%5C+karst%5C+regions%5C+and%5C+no%5C+expansion%5C+was%5C+detected.%5C+Climate%5C+changes%5C+during%5C+glacial%5C+periods%5C+have%5C+had%5C+significant%5C+effects%5C+on%5C+the%5C+current%5C+distribution%5C+of%5C+cycads.%5C+The%5C+molecular%5C+phylogenetic%5C+data%2C%5C+together%5C+with%5C+the%5C+geographic%5C+distribution%5C+of%5C+the%5C+haplotypes%2C%5C+suggest%5C+that%5C+C.%5C+debaoensis%5C+experienced%5C+range%5C+contraction%5C+during%5C+glacial%5C+periods%2C%5C+and%5C+that%5C+the%5C+current%5C+populations%5C+are%5C+still%5C+confined%5C+to%5C+the%5C+original%5C+refugia%5C+in%5C+southwest%5C+China%5C+which%5C+have%5C+favorable%5C+habitats%5C+in%5C+glacial%5C+period.%5C+These%5C+results%5C+imply%5C+that%5C+small%5C+refugia%5C+were%5C+maintained%5C+in%5C+both%5C+sand%5C+and%5C+karst%5C+regions%5C+during%5C+the%5C+LGM%5C+%5C%28last%5C+glacial%5C+maximum%5C%29.%5C+This%5C+species%5C+had%5C+no%5C+postglacial%5C+recolonization%5C+and%5C+only%5C+stayed%5C+in%5C+these%5C+refugia%5C+up%5C+to%5C+now.%5C+The%5C+low%5C+within%5C-population%5C+diversity%5C+of%5C+C.%5C+debaoensis%5C+suggests%5C+that%5C+there%5C+were%5C+strong%5C+bottleneck%5C+events%5C+or%5C+founder%5C+effects%5C+within%5C+each%5C+separate%5C+region%5C+during%5C+the%5C+Quaternary%5C+climatic%5C+oscillations.%5C+Relatively%5C+high%5C+genetic%5C+and%5C+haplotype%5C+diversities%5C+were%5C+detected%5C+in%5C+the%5C+newly%5C+discovered%5C+populations%2C%5C+which%5C+located%5C+at%5C+intermediate%5C+locality%5C+of%5C+sand%5C+regions%5C+and%5C+had%5C+morphological%5C+variation%5C%3B%5C+this%5C+is%5C+probably%5C+the%5C+consequence%5C+of%5C+the%5C+admixture%5C+of%5C+different%5C+haplotypes%5C+colonizing%5C+the%5C+area%5C+from%5C+separate%5C+sources.%5C+%5C+C.%5C+micholitzii%5C+occurs%5C+in%5C+the%5C+Annan%5C+Highlands%5C+in%5C+central%5C+Vietnam%5C+near%5C+the%5C+Laos%5C+border.%5C+C.%5C+bifida%5C+occurs%5C+in%5C+North%5C+Vietnam%5C%3B%5C+its%5C+distribution%5C+extends%5C+across%5C+the%5C+border%5C+into%5C+adjacent%5C+localities%5C+in%5C+Guangxi%5C+and%5C+Yunnan%5C+in%5C+China.%5C+For%5C+the%5C+comparability%5C+between%5C+them%2Ctheywere%5C+considered%5C+as%5C+the%5C+same%5C+species%5C+C.%5C+micholitzii%5C+by%5C+many%5C+academic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a field trip at a brule in Shangri-La, a mixed population of Ligularia Cass. was found, which including L. subspicata (Bur. et Franch.) Hand.-Mazz., L. nelumbifolia (Bur. et Franch.) Hand.-Mazz., L. tongolensis (Franch.) Hand.-Mazz., L. cymbulifera (W.W.Smith) Hand.-Mazz., L. lingiana S.W.Liu, and also some individuals morphologically intermediate between L. subspicata and L. nelumbifolia. Hence, these intermediate individuals were preliminarily assumed as natural hybrids of the two Ligularia. According to their morphology, they’re assumed to form hybrids A and B. Through careful comparison of specimens in herbarium and those we collected, the inflorescence of putative hybrid A is close to L. nelumbifolia, but the shape of laminae are intergradation of L. subspicata and L. nelumbifolia; overall morphology of putative hybrids B is similar to L. nelumbifolia, but inflorescence color is as same as L. subspicata. Compared to L. nelumbifolia (39%) and L. subspicata (36.8%), the germination rate of putative hybrid B (45.7%) slightly higher than the two; but that of hybrid A is extraordinarily low (0.3%). One possible interpretation of the low rate is hybridization. 60 individuals were collected, including putative parents, other 4 species of Ligularia nearby, putative hybrid A and B. They were all direct sequenced of four cpDNA fragments, and direct sequenced or cloning sequenced of nrDNA ITS4-5. The results support that L. nelumbifolia and L. subspicata are parents of putative hybrid A, and the majority female parent is L. subspicata, L. vellerea may also be involved in the hybridization in some degree; the nuclear sequences of putative hybrid B have no superposition, and its chloroplast DNA sequences are identical with L. nelumbifolia, so putative hybrid B could not be hybrid; and there are backcross individuals exist among the putative parent L. subspicata. NewHybrids analysis of ISSR markers indicated that, the individuals of putative hybrid A are almost L. nelumbifolia and L. subspicata F1 hybrid generation (10/11), only 1/11 possibly backcross or other forms; all individuals of hybrid B are L. nelumbifolia; except one individual of L. subspicata as backcrossed, the other parent individuals are 100% reliable. This study focused on molecular evidence, complemented by ecological, reproductive and other characteristics, we demonstrated that the morphologically intermediate individuals’ origin, and the probability of belonging to each parental or hybrid class. And concluded that L. nelumbifolia and L. subspicata are the parents of putative hybrid A, L. vellerea may also be involved in the hybridization in some degree, hybrids mainly are the first generation, a few individuals may be involved in backcross, and most probably backcross with L. subspicata according to the anthesis, while the assumption of hybrid B is not supported.","jscount":"1","jsurl":"/simple-search?field1=all&rpp=10&accurate=false&advanced=false&sort_by=2&isNonaffiliated=false&search_type=-1&query1=Plastid%2BMarkers&order=desc&&fq=dc.project.title_filter%3ADuring%5C+a%5C+field%5C+trip%5C+at%5C+a%5C+brule%5C+in%5C+Shangri%5C-La%2C%5C+a%5C+mixed%5C+population%5C+of%5C+Ligularia%5C+Cass.%5C+was%5C+found%2C%5C+which%5C+including%5C+L.%5C+subspicata%5C+%5C%28Bur.%5C+et%5C+Franch.%5C%29%5C+Hand.%5C-Mazz.%2C%5C+L.%5C+nelumbifolia%5C+%5C%28Bur.%5C+et%5C+Franch.%5C%29%5C+Hand.%5C-Mazz.%2C%5C+L.%5C+tongolensis%5C+%5C%28Franch.%5C%29%5C+Hand.%5C-Mazz.%2C%5C+L.%5C+cymbulifera%5C+%5C%28W.W.Smith%5C%29%5C+Hand.%5C-Mazz.%2C%5C+L.%5C+lingiana%5C+S.W.Liu%2C%5C+and%5C+also%5C+some%5C+individuals%5C+morphologically%5C+intermediate%5C+between%5C+L.%5C+subspicata%5C+and%5C+L.%5C+nelumbifolia.%5C+Hence%2C%5C+these%5C+intermediate%5C+individuals%5C+were%5C+preliminarily%5C+assumed%5C+as%5C+natural%5C+hybrids%5C+of%5C+the%5C+two%5C+Ligularia.%5C+According%5C+to%5C+their%5C+morphology%2C%5C+they%E2%80%99re%5C+assumed%5C+to%5C+form%5C+hybrids%5C+A%5C+and%5C+B.%5C+Through%5C+careful%5C+comparison%5C+of%5C+specimens%5C+in%5C+herbarium%5C+and%5C+those%5C+we%5C+collected%2C%5C+the%5C+inflorescence%5C+of%5C+putative%5C+hybrid%5C+A%5C+is%5C+close%5C+to%5C+L.%5C+nelumbifolia%2C%5C+but%5C+the%5C+shape%5C+of%5C+laminae%5C+are%5C+intergradation%C2%A0of%5C+L.%5C+subspicata%5C+and%5C+L.%5C+nelumbifolia%5C%3B%5C+overall%5C+morphology%5C+of%5C+putative%5C+hybrids%5C+B%5C+is%5C+similar%5C+to%5C+L.%5C+nelumbifolia%2C%5C+but%5C+inflorescence%5C+color%5C+is%5C+as%5C+same%5C+as%5C+L.%5C+subspicata.%5C+Compared%5C+to%5C+L.%5C+nelumbifolia%5C+%5C%2839%25%5C%29%5C+and%5C+L.%5C+subspicata%5C+%5C%2836.8%25%5C%29%2C%5C+the%5C+germination%5C+rate%5C+of%5C+putative%5C+hybrid%5C+B%5C+%5C%2845.7%25%5C%29%5C+slightly%5C+higher%5C+than%5C+the%5C+two%5C%3B%5C+but%5C+that%5C+of%5C+hybrid%5C+A%5C+is%5C+extraordinarily%5C+low%5C+%5C%280.3%25%5C%29.%5C+One%5C+possible%5C+interpretation%5C+of%5C+the%5C+low%5C+rate%5C+is%5C+hybridization.%5C+60%5C+individuals%5C+were%5C+collected%2C%5C+including%5C+putative%5C+parents%2C%5C+other%5C+4%5C+species%5C+of%5C+Ligularia%5C+nearby%2C%5C+putative%5C+hybrid%5C+A%5C+and%5C+B.%5C+They%5C+were%5C+all%5C+direct%5C+sequenced%5C+of%5C+four%5C+cpDNA%5C+fragments%2C%5C+and%5C+direct%5C+sequenced%5C+or%5C+cloning%5C+sequenced%5C+of%5C+nrDNA%5C+ITS4%5C-5.%5C+The%5C+results%5C+support%5C+that%5C+L.%5C+nelumbifolia%5C+and%5C+L.%5C+subspicata%5C+are%5C+parents%5C+of%5C+putative%5C+hybrid%5C+A%2C%5C+and%5C+the%5C+majority%5C+female%5C+parent%5C+is%5C+L.%5C+subspicata%2C%5C+L.%5C+vellerea%5C+may%5C+also%5C+be%5C+involved%5C+in%5C+the%5C+hybridization%5C+in%5C+some%5C+degree%5C%3B%5C+the%5C+nuclear%5C+sequences%5C+of%5C+putative%5C+hybrid%5C+B%5C+have%5C+no%5C+superposition%2C%5C+and%5C+its%5C+chloroplast%5C+DNA%5C+sequences%5C+are%5C+identical%5C+with%5C+L.%5C+nelumbifolia%2C%5C+so%5C+putative%5C+hybrid%5C+B%5C+could%5C+not%5C+be%5C+hybrid%5C%3B%5C+and%5C+there%5C+are%5C+backcross%5C+individuals%5C+exist%5C+among%5C+the%5C+putative%5C+parent%5C+L.%5C+subspicata.%5C+NewHybrids%5C+analysis%5C+of%5C+ISSR%5C+markers%5C+indicated%5C+that%2C%5C+the%5C+individuals%5C+of%5C+putative%5C+hybrid%5C+A%5C+are%5C+almost%5C+L.%5C+nelumbifolia%5C+and%5C+L.%5C+subspicata%5C+F1%5C+hybrid%5C+generation%5C+%5C%2810%5C%2F11%5C%29%2C%5C+only%5C+1%5C%2F11%5C+possibly%5C+backcross%5C+or%5C+other%5C+forms%5C%3B%5C+all%5C+individuals%5C+of%5C+hybrid%5C+B%5C+are%5C+L.%5C+nelumbifolia%5C%3B%5C+except%5C+one%5C+individual%5C+of%5C+L.%5C+subspicata%5C+as%5C+backcrossed%2C%5C+the%5C+other%5C+parent%5C+individuals%5C+are%5C+100%25%5C+reliable.%5C+This%5C+study%5C+focused%5C+on%5C+molecular%5C+evidence%2C%5C+complemented%5C+by%5C+ecological%2C%5C+reproductive%5C+and%5C+other%5C+characteristics%2C%5C+we%5C+demonstrated%5C+that%5C+the%5C+morphologically%5C+intermediate%5C+individuals%E2%80%99%5C+origin%2C%5C+and%5C+the%5C+probability%5C+of%5C+belonging%5C+to%5C+each%5C+parental%5C+or%5C+hybrid%5C+class.%5C+And%5C+concluded%5C+that%5C+L.%5C+nelumbifolia%5C+and%5C+L.%5C+subspicata%5C+are%5C+the%5C+parents%5C+of%5C+putative%5C+hybrid%5C+A%2C%5C+L.%5C+vellerea%5C+may%5C+also%5C+be%5C+involved%5C+in%5C+the%5C+hybridization%5C+in%5C+some%5C+degree%2C%5C+hybrids%5C+mainly%5C+are%5C+the%5C+first%5C+generation%2C%5C+a%5C+few%5C+individuals%5C+may%5C+be%5C+involved%5C+in%5C+backcross%2C%5C+and%5C+most%5C+probably%5C+backcross%5C+with%5C+L.%5C+subspicata%5C+according%5C+to%5C+the%5C+anthesis%2C%5C+while%5C+the%5C+assumption%5C+of%5C+hybrid%5C+B%5C+is%5C+not%5C+supported."},{"jsname":"Flower scent is a very important character in rose breeding. However, many of 25,000 rose cultivars have no scent or weak scent. The tea scent of modern roses mainly originated from Rosa odorata (Andrews) Sweet, which is one of the most important ancestors of modern cultivated roses and the very important rose breeding resource. Due to the land expanding, habitat fragmentation and so on, R. odorata has been listed as an endangered species in ‘Chinese Plant Red Data Book—Rare and Endangered Plants’ and as the third-category endangered species in ‘Chinese Rare and Endangered Protective Plants List’. Therefore, it is urgent to protect this species and studying the conservation genetics of R. odorata is essentially important to work out a strategy of conservation.R. odorata comprises three double-petaled varieties (R. odorata var. odorata, R. odorata var. erubescens, and R. odorata var. pseudindica) and one single-petaled variety (R. odorata var. gigantea). The taxonomy of the three double-petaled varieties of R. odorata has been disputed for a long time. They have been treated as intraspecific taxa of R. odorata var. gigantea or R. chinensis by different botanist. According to the morphological analyses, Hurst (1941) inferred that R. odorata var. odorata was the hybrid between R. odorata var. gigantea and R. chinensis. Therefore, in order to clarify the right protective units, two single-copy nuclear genes (GAPDH and ncpGS), together with two plastid loci (trnL-F and psbA-trnH) were applied to study the hybrid origin of the three double-petaled varieties and to identify their possible parents. Our data suggested the hybrid origin of the three double-petaled varieties. We inferred that R. odorata var. gigantea could be the maternal parent and R. chinensis cultivars be the paternal parent. It is strongly suggested that the conservation of R. odorata is the conservation of its wild type, R. odorata var. gigantea. We first applied seven microsatellite loci (SSR) coupled with a single-copy nuclear gene GAPDH to study the genetic diversity and genetic structure of R. odorata var. gigantea. The main results are shown as follows:1. Genetic diversity：R. odorata var. gigantea maintains high degree of genetic diversity within and among populations (SSR: HT = 0.738, HS = 0.569, AR = 5.583, PPB = 97.35%, I = 1.703; GAPDH: HT = 0.739, HS = 0.540). We inferred that, outcrossing, long-lived tree species, clonal reproduction and general intraspecies hybridization between individuals, have contributed to the high degree of genetic diversity in R. odorata var. gigantea.2. Genetic differentiation and genetic structure：There was some degree of genetic differentiation among populations (SSR: GST = 0.229, FST = 0.240; GAPDH: GST = 0.269). The geographic isolation limited the dispersal of pollen or seeds, which resulted in the limitation of gene flow (Nm = 0.792). Then, the limited gene flow should be accounted for the genetic differentiation. Both the results of SSR data and haplotype analysis of GAPDH indicated that, the studied populations were divided into two distinct groups by Honghe River. These two groups showed significant genetic differentiation and represented two separate evolutionary lineages, which should be recognized as two evolutionary significant units (ESUs) for conservation concerns.3. Conservation of R. odorata：R. odorata var. gigantea has been listed in the ‘National Key Protective Wild Species List (II)’. Therefore, the conservation of this species is urgent. We inferred that, the main endangered reasons should be the habitat fragmentation and the reduction of populations and individuals per population resulted from environmental damage and human activities. We proposed that the strategy of in-situ conservation combining with ex-situ conservation should be carried out.","jscount":"1","jsurl":"/simple-search?field1=all&rpp=10&accurate=false&advanced=false&sort_by=2&isNonaffiliated=false&search_type=-1&query1=Plastid%2BMarkers&order=desc&&fq=dc.project.title_filter%3AFlower%5C+scent%5C+is%5C+a%5C+very%5C+important%5C+character%5C+in%5C+rose%5C+breeding.%5C+However%2C%5C+many%5C+of%5C+25%2C000%5C+rose%5C+cultivars%5C+have%5C+no%5C+scent%5C+or%5C+weak%5C+scent.%5C+The%5C+tea%5C+scent%5C+of%5C+modern%5C+roses%5C+mainly%5C+originated%5C+from%5C+Rosa%5C+odorata%5C+%5C%28Andrews%5C%29%5C+Sweet%2C%5C+which%5C+is%5C+one%5C+of%5C+the%5C+most%5C+important%5C+ancestors%5C+of%5C+modern%5C+cultivated%5C+roses%5C+and%5C+the%5C+very%5C+important%5C+rose%5C+breeding%5C+resource.%5C+Due%5C+to%5C+the%5C+land%5C+expanding%2C%5C+habitat%5C+fragmentation%5C+and%5C+so%5C+on%2C%5C+R.%5C+odorata%5C+has%5C+been%5C+listed%5C+as%5C+an%5C+endangered%5C+species%5C+in%5C+%E2%80%98Chinese%5C+Plant%5C+Red%5C+Data%5C+Book%E2%80%94Rare%5C+and%5C+Endangered%5C+Plants%E2%80%99%5C+and%5C+as%5C+the%5C+third%5C-category%5C+endangered%5C+species%5C+in%5C+%E2%80%98Chinese%5C+Rare%5C+and%5C+Endangered%5C+Protective%5C+Plants%5C+List%E2%80%99.%5C+Therefore%2C%5C+it%5C+is%5C+urgent%5C+to%5C+protect%5C+this%5C+species%5C+and%5C+studying%5C+the%5C+conservation%5C+genetics%5C+of%5C+R.%5C+odorata%5C+is%5C+essentially%5C+important%5C+to%5C+work%5C+out%5C+a%5C+strategy%5C+of%5C+conservation.R.%5C+odorata%5C+comprises%5C+three%5C+double%5C-petaled%5C+varieties%5C+%5C%28R.%5C+odorata%5C+var.%5C+odorata%2C%5C+R.%5C+odorata%5C+var.%5C+erubescens%2C%5C+and%5C+R.%5C+odorata%5C+var.%5C+pseudindica%5C%29%5C+and%5C+one%5C+single%5C-petaled%5C+variety%5C+%5C%28R.%5C+odorata%5C+var.%5C+gigantea%5C%29.%5C+The%5C+taxonomy%5C+of%5C+the%5C+three%5C+double%5C-petaled%5C+varieties%5C+of%5C+R.%5C+odorata%5C+has%5C+been%5C+disputed%5C+for%5C+a%5C+long%5C+time.%5C+They%5C+have%5C+been%5C+treated%5C+as%5C+intraspecific%5C+taxa%5C+of%5C+R.%5C+odorata%5C+var.%5C+gigantea%5C+or%5C+R.%5C+chinensis%5C+by%5C+different%5C+botanist.%5C+According%5C+to%5C+the%5C+morphological%5C+analyses%2C%5C+Hurst%5C+%5C%281941%5C%29%5C+inferred%5C+that%5C+R.%5C+odorata%5C+var.%5C+odorata%5C+was%5C+the%5C+hybrid%5C+between%5C+R.%5C+odorata%5C+var.%5C+gigantea%5C+and%5C+R.%5C+chinensis.%5C+Therefore%2C%5C+in%5C+order%5C+to%5C+clarify%5C+the%5C+right%5C+protective%5C+units%2C%5C+two%5C+single%5C-copy%5C+nuclear%5C+genes%5C+%5C%28GAPDH%5C+and%5C+ncpGS%5C%29%2C%5C+together%5C+with%5C+two%5C+plastid%5C+loci%5C+%5C%28trnL%5C-F%5C+and%5C+psbA%5C-trnH%5C%29%5C+were%5C+applied%5C+to%5C+study%5C+the%5C+hybrid%5C+origin%5C+of%5C+the%5C+three%5C+double%5C-petaled%5C+varieties%5C+and%5C+to%5C+identify%5C+their%5C+possible%5C+parents.%5C+Our%5C+data%5C+suggested%5C+the%5C+hybrid%5C+origin%5C+of%5C+the%5C+three%5C+double%5C-petaled%5C+varieties.%5C+We%5C+inferred%5C+that%5C+R.%5C+odorata%5C+var.%5C+gigantea%5C+could%5C+be%5C+the%5C+maternal%5C+parent%5C+and%5C+R.%5C+chinensis%5C+cultivars%5C+be%5C+the%5C+paternal%5C+parent.%5C+It%5C+is%5C+strongly%5C+suggested%5C+that%5C+the%5C+conservation%5C+of%5C+R.%5C+odorata%5C+is%5C+the%5C+conservation%5C+of%5C+its%5C+wild%5C+type%2C%5C+R.%5C+odorata%5C+var.%5C+gigantea.%5C+We%5C+first%5C+applied%5C+seven%5C+microsatellite%5C+loci%5C+%5C%28SSR%5C%29%5C+coupled%5C+with%5C+a%5C+single%5C-copy%5C+nuclear%5C+gene%5C+GAPDH%5C+to%5C+study%5C+the%5C+genetic%5C+diversity%5C+and%5C+genetic%5C+structure%5C+of%5C+R.%5C+odorata%5C+var.%5C+gigantea.%5C+The%5C+main%5C+results%5C+are%5C+shown%5C+as%5C+follows%5C%3A1.%5C+Genetic%5C+diversity%EF%BC%9AR.%5C+odorata%5C+var.%5C+gigantea%5C+maintains%5C+high%5C+degree%5C+of%5C+genetic%5C+diversity%5C+within%5C+and%5C+among%5C+populations%5C+%5C%28SSR%5C%3A%5C+HT%5C+%3D%5C+0.738%2C%5C+HS%5C+%3D%5C+0.569%2C%5C+AR%5C+%3D%5C+5.583%2C%5C+PPB%5C+%3D%5C+97.35%25%2C%5C+I%5C+%3D%5C+1.703%5C%3B%5C+GAPDH%5C%3A%5C+HT%5C+%3D%5C+0.739%2C%5C+HS%5C+%3D%5C+0.540%5C%29.%5C+We%5C+inferred%5C+that%2C%5C+outcrossing%2C%5C+long%5C-lived%5C+tree%5C+species%2C%5C+clonal%5C+reproduction%5C+and%5C+general%5C+intraspecies%5C+hybridization%5C+between%5C+individuals%2C%5C+have%5C+contributed%5C+to%5C+the%5C+high%5C+degree%5C+of%5C+genetic%5C+diversity%5C+in%5C+R.%5C+odorata%5C+var.%5C+gigantea.2.%5C+Genetic%5C+differentiation%5C+and%5C+genetic%5C+structure%EF%BC%9AThere%5C+was%5C+some%5C+degree%5C+of%5C+genetic%5C+differentiation%5C+among%5C+populations%5C+%5C%28SSR%5C%3A%5C+GST%5C+%3D%5C+0.229%2C%5C+FST%5C+%3D%5C+0.240%5C%3B%5C+GAPDH%5C%3A%5C+GST%5C+%3D%5C+0.269%5C%29.%5C+The%5C+geographic%5C+isolation%5C+limited%5C+the%5C+dispersal%5C+of%5C+pollen%5C+or%5C+seeds%2C%5C+which%5C+resulted%5C+in%5C+the%5C+limitation%5C+of%5C+gene%5C+flow%5C+%5C%28Nm%5C+%3D%5C+0.792%5C%29.%5C+Then%2C%5C+the%5C+limited%5C+gene%5C+flow%5C+should%5C+be%5C+accounted%5C+for%5C+the%5C+genetic%5C+differentiation.%5C+Both%5C+the%5C+results%5C+of%5C+SSR%5C+data%5C+and%5C+haplotype%5C+analysis%5C+of%5C+GAPDH%5C+indicated%5C+that%2C%5C+the%5C+studied%5C+populations%5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the rapid uplift of the Himalaya, the reorganization of the major river drainages was primarily caused by river capture events，e.g. those of the Jinshajiang River (comprising the Upper, Middle and Lower Jinshajiang) and its tributaries (Yalongjiang, Daduhe, Jialingjiang), the Nujiang, the Lancangjiang, and the Honghe. We selected Terminalia franchetii var. franchetii and T. franchetii var. intricata in the Sino-Himalayan region to study the relationship with Honghe diversion events. The distribution of this species is predicted to have retained genetic signatures of past hydrological landscape structures. The major result as flowing:1. Chloroplast phylogeography of T. franchetii based on haplotype analysis，Based on a range-wide sampling comprising 28 populations and 258 individuals, and using chloroplast DNA sequences (trnL-trnF, petL-psbE), we detected 12 haplotypes. Terminalia franchetii was found to harbour high haplotype diversity (hT = 0.784) but low average within-population diversity (hS = 0.124). The analysis of genetic structure using SAMOVA showed that the number of population groups equaled five, and all the haplotypes can be divided into five groups. Group B and C identified exhibited a disjunctive distribution of dominant haplotypes between northern and southern valleys, corresponding to the geography of past rather than modern drainage systems.Mismatch distribution (multimodal curve) and neutral tests provided no evidence of recent demographic population growth. We suggest that the modern disjunctive distribution of T. franchetii, and associated patterns of cpDNA haplotype variation, result from vicariance caused by several historical river separation and capture events. By assuming a common mutation rate of the cpDNA-IGS regions, our inferred timings of these events (0.82-4.39 Mya) broadly agrees with both previous geological and molecular estimated time of drainage rearrangements in this region. So we conclude that there were several historical vicariance events play a major role for the distribution of T. franchetii in this region.2. Genetic diversity and structure of T. franchetii var. franchetii based on AFLP analysis，We determined the genotype of 251 individuals of T. franchetii var. franchetii from 21 populations using amplified fragment length polymorphism (AFLP), for our aim is only investigated the relationship between the modern distribution of T. franchetii and geological changes in drainage patterns. The overall estimate of genetic structure (Gst) was 0.249, indicating that clear genetic differentiation existed among the populations. Estimates of gene flow (Nm = 0.754) between populations based on the Gst value revealed that the number of migrants per generation is not frequently.Using Neighbor-Joining tree, Principal Coordinates Analysis, STRUCTURE and network methods, Analyses of AFLP markers identified two main population groups (I and II) and four subgroups (A – D) of T. franchetii. Genetic diversity was lower in Group I than in Group II. The results show that Groups I and II probably once occupied continuous areas respectively along ancient drainage systems and there were several historical separation and capture events that can account for the distribution of T. franchetii in this region. After all，these are good examples of the way in which historical events can change a species’ distribution from continuous to fragmented (Jinshajiang/ Yalongjiang and Honghe), and a disjunct distribution to a continuous one (Upper/Lower Jinshajiang and Yalongjiang). The results provide new insights into the phylogeographic pattern of plants in southwest China.3. Relationships between T. franchetii var. franchetii and T. franchetii var. intricata ，While T. franchetii var. Franchetii and var. intricata slightly differ in overall size and leaf hairiness, these taxa did not exhibit reciprocal monophyly. As results show, the genetic difference between the two varieties is much smaller than that within var. franchetii (Salween population vs. other populationsof this variety). It is also revealed in a phylogenetic analysis of ITS region of Combretoideae. The habitats of var. franchetii and var. intricata have obviously difference. Thus, the differences between the two varieties in overall size and leaf hairiness might reflect different phenotypic responses to environmental changes and the divergent environmental niche spaces they occupy. Based on the reasoning above, we agree with Flora of China that “T. intricata” represents a variety of T. franchetii rather than a separate 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Systematics and Biogeography of Aralia L. (Araliaceae):Revision of Aralia Sects. Aralia, Humiles, Nanae, andSciadodendron
期刊论文
出版物, 3111, 卷号: 57, 期号: 0, 页码: 1-172
作者:
Jun Wen
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提交时间：2017/07/24
Aralia
Aralia Sect. Aralia
Aralia Sect. Dimorphanthus
Aralia Sect. Humiles
Aralia Sect. Nanae
Aralia Sect. pentapanax
Aralia Sect. Sciadodendron
Biogeography
Araliaceae
Systematics
Three new species of Polystichum (Dryopteridaceae) from Xizang, China based on morphological and molecular evidence
期刊论文
PHYTOTAXA, 2023, 卷号: 618, 期号: 1, 页码: 18-30
作者:
Qiu,Yong-ling
;
Yang,Jian-jun
;
Zhou,Xin-mao
;
Ju,Wen-bin
;
Zhang,Li-bing
;
He,Zhao-rong
;
Zhang,Liang
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提交时间：2024/05/09
bulbils
Medog
Polystichum hookerianum
Polystichum obliquum
Tibet
SOUTHEASTERN XIZANG
POLYPODIACEAE
Characteristics of plastid genomes in the genus Ceratostigma inhabiting arid habitats in China and their phylogenomic implications
期刊论文
BMC PLANT BIOLOGY, 2023, 卷号: 23, 期号: 1, 页码: 303
作者:
Zhao,Yu-Juan
;
Liu,Jian
;
Yin,Gen-Shen
;
Gong,Xun
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Ceratostigma
Plastid genome
Comparative analysis
Interspecific relationship
Plumbaginaceae
COMPLETE CHLOROPLAST GENOME
MEKONG-SALWEEN DIVIDE
LIMONIUM-SINENSE
INVERTED REPEAT
SEQUENCE
EVOLUTION
DNA
PLUMBAGINACEAE
CONSEQUENCES
DIVERSITY
Testing complete plastomes and nuclear ribosomal DNA sequences for species identification in a taxonomically difficult bamboo genus Fargesia
期刊论文
PLANT DIVERSITY, 2023, 卷号: 45, 期号: 2, 页码: 147-155
作者:
Lv,Shi-Yu
;
Ye,Xia-Ying
;
Li,Zhong-Hu
;
Ma,Peng-Fei
;
Li,De-Zhu
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Fargesia
Genome-skimming
DNA barcoding
Plastome
Ribosomal DNA
WHOLE CHLOROPLAST GENOMES
RNA-SEQ DATA
ARUNDINARIEAE POACEAE
BAMBUSOIDEAE
TEMPERATE
PLATFORM
Comparative analyses of Linderniaceae plastomes, with implications for its phylogeny and evolution
期刊论文
FRONTIERS IN PLANT SCIENCE, 2023, 卷号: 14, 页码: 1265641
作者:
Yan,Rongrong
;
Geng,Yanfei
;
Jia,Yuhuan
;
Xiang,Chunlei
;
Zhou,Xinxin
;
Hu,Guoxiong
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Lindernieae
Lindernia
Picria
Torenia
Scrophulariaceae
chloroplast genome
phylogenomics
SEQUENCE
PLACEMENT
SOFTWARE
TORENIA
DNA
DISINTEGRATION
MITOCHONDRIAL
ALIGNMENT
PLATFORM
GENOMES
Comparative plastome genomics and phylogenetic relationships of the genus Trollius
期刊论文
FRONTIERS IN PLANT SCIENCE, 2023, 卷号: 14, 页码: 1293091
作者:
Li,Jiaxin
;
Du,Yan
;
Xie,Lei
;
Jin,Xiaohua
;
Zhang,Zhirong
;
Yang,Meiqing
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Trollius
plastome
comparative analysis
divergent hotspots
phylogenetic relationships
COMPLETE CHLOROPLAST GENOME
SEQUENCE
RANUNCULACEAE
REPEATS
PLANT
DNA
箭竹属的 DNA 条形码研究
学位论文
: 中国科学院大学, 2022
作者:
吕时雨
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提交时间：2024/05/14
箭竹属， 浅层测序， DNA条形码， 叶绿体基因组， 核糖体DNA
Fargesia, genome-skimming, DNA barcoding, plastome, ribosomal DNA
广义红豆杉科系统发育基因组学与生物地理学研究
学位论文
: 中国科学院大学, 2022
作者:
汪洁
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广义红豆杉科，叶绿体基因组，二代条形码，系统发育基因组学，生物地理
Taxaceae s.l., Plastomes, Super-barcoding, Phylogenomics, Biogeography
唇形科野芝麻亚科的叶绿体系统发育基因组学研究
学位论文
: 中国科学院大学, 2022
作者:
武忆雯
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野芝麻亚科，刺蕊草族，假野芝麻属，糙苏族，分子系统学
Lamioideae, Pogostemoneae, Paralamium, Phlomideae, molecular phylogenetic study.
A global phylogeny of Lycopodiaceae (Lycopodiales; lycophytes) with the description of a new genus, Brownseya, from Oceania
期刊论文
TAXON, 2022, 卷号: 71, 期号: 1, 页码: 25-51
作者:
Chen,De-Kui
;
Zhou,Xin-Mao
;
Rothfels,Carl J.
;
Shepherd,Lara D.
;
Knapp,Ralf
;
Zhang,Liang
;
Lu,Ngan Thi
;
Fan,Xue-Ping
;
Wan,Xia
;
Gao,Xin-Fen
;
He,Hai
;
Zhang,Li-Bing
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提交时间：2022/04/02
Huperzia
Lycophyte Phylogeny
Lycopodiella Serpentina
Phlegmariurus
Phylloglossum
Vascular Plant Evolution
Complete Chloroplast Genome
Lycopodiopsida Lycopodiaceae
Generic Classification
Spore Morphology
Early Evolution
Land Plants
Rbcl Gene
Huperzia
Sequence
Likelihood
