Allozyme Diversity and Lntrogression in the Galapagos Islands Endemic Gossypium Datwinii and Its Relationship to Continental G

Total Page:16

File Type:pdf, Size:1020Kb

Allozyme Diversity and Lntrogression in the Galapagos Islands Endemic Gossypium Datwinii and Its Relationship to Continental G Botany Publication and Papers Botany 1990 Allozyme Diversity and lntrogression in the Galapagos Islands Endemic Gossypium datwinii and its Relationship to Continental G. barbadense Jonathan F. Wendel Iowa State University, [email protected] Richard G. Percy United States Department of Agriculture Follow this and additional works at: http://lib.dr.iastate.edu/bot_pubs Part of the Botany Commons, Evolution Commons, and the Molecular Genetics Commons Recommended Citation Wendel, Jonathan F. and Percy, Richard G., "Allozyme Diversity and lntrogression in the Galapagos Islands Endemic Gossypium datwinii and its Relationship to Continental G. barbadense" (1990). Botany Publication and Papers. 10. http://lib.dr.iastate.edu/bot_pubs/10 This Article is brought to you for free and open access by the Botany at Iowa State University Digital Repository. It has been accepted for inclusion in Botany Publication and Papers by an authorized administrator of Iowa State University Digital Repository. For more information, please contact [email protected]. Allozyme Diversity and lntrogression in the Galapagos Islands Endemic Gossypium datwinii and its Relationship to Continental G. barbadense Abstract Gossypium darwinii Watt is a tetraploid cotton endemic to the Galapagos Islands. Opinion has been divided as to whether or not it deserves recognition at the specific ar nk, with some considering it a variety of its presumed progenitor, the widely distributed South American species G. barbadense L. A previous hypothesis states that much of the perceived intergradation between the two taxa arose as a consequence of introgression from G. barbadense following its introduction to the archipelago during the past several hundred years. We performed allozyme analysis on 58 accessions of G. darwinii from six islands, using 17 enzymes collectively encoded by 59 loci. Levels of variation were high for an island endemic, with a mean number of alleles per locus of 1.34 and an average panmictic heterozygosity of 0.062. Principal component analysis revealed clustering of accessions according to their island of origin, and a spatial pattern of island-clusters that approximates geographical relationships among islands. Genetic relationships of G. darwinii with G. barbadense and G. hirsutum L. were studied using previously generated allozyme data. Significant introgression of G. hirsutum alleles was detected; however morphological considerations support the hypothesis that much of G. darwinii's diversity stems from interspecific eg ne flow from G. barbadense, Evidence is presented suggesting that the occurrence of G. hirsutum alleles in G. darwinii derives not from direct hybridization, but from a mediated transfer through introduced, G. hirsutum-introgressed;G. barbadense. Gossypium darwinii and G. barbadense are nearly fixed for different alleles at four loci and each contains a large number of unique alleles. Notwithstanding the high interspecific eiN 's genetic identity (0.949), the allozyme data support geographical and morphological evidence in suggesting that a specific ar nk for G. darwinii is warranted. Keywords Gossypium darwinii, G. barbadense, Malvaceae, cotton, introgression, Galapagos Islands, genetic variation, island evolution, allozymes, molecular divergence Disciplines Botany | Evolution | Molecular Genetics Comments This article is from Biochemical Systematics and Ecology 18 (1990): 517, doi:10.1016/ 0305-1978(90)90123-W. Rights Works produced by employees of the U.S. Government as part of their official duties are not copyrighted within the U.S. The onc tent of this document is not copyrighted. This article is available at Iowa State University Digital Repository: http://lib.dr.iastate.edu/bot_pubs/10 Biochemical Systematics and Ecology, Vol. 18, No. 7/8, pp. 517-528, 1990. 0305-1978/90 $3.00 + 0.00 Printed in Great Britain. © 1991 Pergamon Press pic. Allozyme Diversity and lntrogression in the Galapagos Islands Endemic Gossypium datwinii and its Relationship to Continental G. barbadense JONATHAN F. WENDEL* and RICHARD G. PERCYt *Department of Botany, Bessey Hall, Iowa State University, Ames, lA 50011, U.S.A.; tUSDA-ARS, in cooperation with the Arizona Agricultural Experimental Station, Maricopa Agricultural Center, 37860 W. Smith-Enke Rd, Maricopa, AZ 85339, U.S.A. Key Word lndex-Gossypium darwinii; G. barbadense; Malvaceae; cotton; introgression; Galapagos Islands; genetic varia­ tion; island evolution; allozymes; molecular divergence. Abstract-Gossypium darwiniiWatt is a tetraploid cotton endemic to the Galapagos Islands. Opinion has been divided as to whether or not it deserves recognition at the specific rank, with some considering it a variety of its presumed progenitor, the widely distributed South American species G. barbadense L. A previous hypothesis states that much of the perceived inter­ gradation between the two taxa arose as a consequence of introgression from G. barbadense following its introduction to the archipelago during the past several hundred years. We performed allozyme analysis on 58 accessions of G. darwinii from six islands, using 17 enzymes collectively encoded by 59 loci. Levels of variation were high for an island endemic, with a mean number of alleles per locus of 1.34 and an average panmictic heterozygosity of 0.062. Principal component analysis revealed clustering of accessions according to their island of origin, and a spatial pattern of island-clusters that approximates geo­ graphical relationships among islands. Genetic relationships of G. darwiniiwith G. barbadense and G. hirsutum L. were studied using previously generated allozyme data. Significant introgression of G. hirsutum alleles was detected; however morphologi­ cal considerations support the hypothesis that much of G. darwinii's diversity stems from interspecific gene flow from G. barbadense. Evidence is presented suggesting that the occurrence of G. hirsutum alleles in G. darwinii derives not from direct hybridization, but from a mediated transfer through introduced, G. hirsutum-introgressed G. barbadense. Gossypium darwinii and G. barbadense are nearly fixed for different alleles at four loci and each contains a large number of unique alleles. Notwithstanding the high interspecific Nei's genetic identity (0.949). the allozyme data support geographical and morphological evidence in suggesting that a specific rank for G. darwinii is warranted. Introduction G. darwinii, and its presumed progenitor, is G. Approximately 500 species of vascular plants are barbadense L., one of two commercially import­ indigenous to the Galapagos Islands, including ant (with G. hirsutum L.) tetraploid (2n=4x=52) about 200 endemics [1-3]. Two of these species of cotton. Gossypium barbadense has an endemics are members of the cotton genus indigenous cultivated range throughout the New ( Gossypium L.). G. k/otzschianum Anderss. World tropics, but its pre-agricultural distribu­ (reported from five of the islands) and G. darwinii tion appears to be northwestern S. American [5, Watt , (from 13 islands). Phytogeographic 6]. evidence suggests that most of the Galapagos Opinion has been divided as to whether G. flora (approximately 90%) arose from western darwinii deserves recognition at the specific South American ancestors, some 1000 km or rank. Watt, in honoring the Galapagos' most more distant [1-3]. An exception to this generali­ famous visitor with the commemorative epithet, zation is G. k/otzschianum, one of 13 diploid emphasized several morphological disconti­ (2n=26) Gossypium species native to the West­ nuities between the two taxa and their geo­ ern Hemisphere. Gossypium klotzschianum is graphic isolation [7]. He stated that "At the time unique among the Galapagos endemics in that it at which this species was collected by Darwin [in apparently originated from a northern Mexican 1835 on San Salvador, including the type progenitor [4]. In contrast, the closest relative of specimen] . cotton could hardly have been cultivated anywhere on the Galapagos Islands (Received 25 June 1990) ...", and concluded that "it is a perfectly good 517 518 J. F. WENDEL AND R. G. PERCY species." Later adherents of this view include from throughout the species' range (Table 1, Fig. Harland [8], based on comparative genetic 1). Evidence from previous studies indicated that analyses, and Fryxell [9], in the most recent these 17 enzymes are encoded by a minimum of monograph of the genus. The alternative opinion 59 genetic loci [6]. Allelic variants at 14 of these was promulgated by Hutchinson et al [5], who loci distinguish G. barbadense from G. hirsutum reduced G. darwinii to varietal rank [G. bar­ [6; Wendel, unpublished data], providing the badense var. darwinii (Watt) J. B. Hutch.]. capability of documenting interspecific introgres­ Kearney [10] and Valicek [11] concurred, the sion (see Discussion). An initial inspection of the latter author stating that G. darwinii is " ... allelic presence data for the 58 G. darwinii acces­ decidedly not an independent (separate) sions led to the recognition of seven accessions species." (AS892, CB3087, CB3097, CB3098, WB1207, Hutchinson et al [5] offered several reasons WB1249, PW56) that contained one or more G. for reducing G. darwiniito varietal status, includ­ hirsutum alleles. These seven accessions were ing its highly variable morphology, the vigorous dropped from the initial data set and are not in­ and fertile F2 generation obtained from inter­ cluded in the results presented in Tables 2-5. specific G. barbadense X G. darwinii hybrids, For the
Recommended publications
  • Stable and Widespread Structural Heteroplasmy in Chloroplast Genomes Revealed by a New Long-Read Quantification Method
    bioRxiv preprint doi: https://doi.org/10.1101/692798; this version posted July 11, 2019. The copyright holder for this preprint (which was not certified by peer review) is the author/funder, who has granted bioRxiv a license to display the preprint in perpetuity. It is made available under aCC-BY 4.0 International license. Classification: Biological Sciences, Evolution Title: Stable and widespread structural heteroplasmy in chloroplast genomes revealed by a new long-read quantification method Weiwen Wang a, Robert Lanfear a a Research School of Biology, Australian National University, Canberra, ACT, Australia, 2601 Corresponding Author: Weiwen Wang, [email protected] Robert Lanfear, [email protected], +61 2 6125 2536 Keywords: Single copy inversion, flip-flop recombination, chloroplast genome structural heteroplasmy 1 bioRxiv preprint doi: https://doi.org/10.1101/692798; this version posted July 11, 2019. The copyright holder for this preprint (which was not certified by peer review) is the author/funder, who has granted bioRxiv a license to display the preprint in perpetuity. It is made available under aCC-BY 4.0 International license. 1 Abstract 2 The chloroplast genome usually has a quadripartite structure consisting of a large 3 single copy region and a small single copy region separated by two long inverted 4 repeats. It has been known for some time that a single cell may contain at least two 5 structural haplotypes of this structure, which differ in the relative orientation of the 6 single copy regions. However, the methods required to detect and measure the 7 abundance of the structural haplotypes are labour-intensive, and this phenomenon 8 remains understudied.
    [Show full text]
  • Polyploidy and the Evolutionary History of Cotton
    POLYPLOIDY AND THE EVOLUTIONARY HISTORY OF COTTON Jonathan F. Wendel1 and Richard C. Cronn2 1Department of Botany, Iowa State University, Ames, Iowa 50011, USA 2Pacific Northwest Research Station, USDA Forest Service, 3200 SW Jefferson Way, Corvallis, Oregon 97331, USA I. Introduction II. Taxonomic, Cytogenetic, and Phylogenetic Framework A. Origin and Diversification of the Gossypieae, the Cotton Tribe B. Emergence and Diversification of the Genus Gossypium C. Chromosomal Evolution and the Origin of the Polyploids D. Phylogenetic Relationships and the Temporal Scale of Divergence III. Speciation Mechanisms A. A Fondness for Trans-oceanic Voyages B. A Propensity for Interspecific Gene Exchange IV. Origin of the Allopolyploids A. Time of Formation B. Parentage of the Allopolyploids V. Polyploid Evolution A. Repeated Cycles of Genome Duplication B. Chromosomal Stabilization C. Increased Recombination in Polyploid Gossypium D. A Diverse Array of Genic and Genomic Interactions E. Differential Evolution of Cohabiting Genomes VI. Ecological Consequences of Polyploidization VII. Polyploidy and Fiber VIII. Concluding Remarks References The cotton genus (Gossypium ) includes approximately 50 species distributed in arid to semi-arid regions of the tropic and subtropics. Included are four species that have independently been domesticated for their fiber, two each in Africa–Asia and the Americas. Gossypium species exhibit extraordinary morphological variation, ranging from herbaceous perennials to small trees with a diverse array of reproductive and vegetative
    [Show full text]
  • Long-Reads Reveal That the Chloroplast Genome Exists in Two Distinct Versions in Most Plants
    GBE Long-Reads Reveal That the Chloroplast Genome Exists in Two Distinct Versions in Most Plants Weiwen Wang* and Robert Lanfear* Division of Ecology and Evolution, Research School of Biology, Australian National University, Acton, Australian Capital Territory, Australia *Corresponding authors: E-mails: [email protected]; [email protected]. Accepted: November 15, 2019 Downloaded from https://academic.oup.com/gbe/article/11/12/3372/5637229 by guest on 02 October 2021 Data deposition: The Herrania umbratica and Siraitia grosvenorii chloroplast genomes in this project have been deposited at NCBI under the accession MN163033 and MK279915. Abstract The chloroplast genome usually has a quadripartite structure consisting of a large single copy region and a small single copy region separated by two long inverted repeats. It has been known for some time that a single cell may contain at least two structural haplotypes of this structure, which differ in the relative orientation of the single copy regions. However, the methods required to detect and measure the abundance of the structural haplotypes are labor-intensive, and this phenomenon remains understudied. Here, we develop a new method, Cp-hap, to detect all possible structural haplotypes of chloroplast genomes of quadripartite structure using long-read sequencing data. We use this method to conduct a systematic analysis and quantification of chloroplast structural haplotypes in 61 land plant species across 19 orders of Angiosperms, Gymnosperms, and Pteridophytes. Our results show that there are two chloroplast structural haplotypes which occur with equal frequency in most land plant individuals. Nevertheless, species whose chloroplast genomes lack inverted repeats or have short inverted repeats have just a single structural haplotype.
    [Show full text]
  • Variation Than Mainland Populations?
    Heredity 78 (1997) 311—327 Received 30Apr11 1996 Do island populations have less genetic variation than mainland populations? R. FRANKHAM* Key Centre for Biodiversity and Bioresources, Macquarie University, Sydney, NSW2109, Australia Islandpopulations are much more prone to extinction than mainland populations. The reasons for this remain controversial. If inbreeding and loss of genetic variation are involved, then genetic variation must be lower on average in island than mainland populations. Published data on levels of genetic variation for allozymes, nuclear DNA markers, mitochondrial DNA, inversions and quantitative characters in island and mainland populations were analysed. A large and highly significant majority of island populations have less allozyme genetic variation than their mainland counterparts (165 of 202 comparisons), the average reduction being 29 per cent. The magnitude of differences was related to dispersal ability. There were related differ- ences for all the other measures. Island endemic species showed lower genetic variation than related mainland species in 34 of 38 cases. The proportionate reduction in genetic variation was significantly greater in island endemic than in nonendemic island populations in mammals and birds, but not in insects. Genetic factors cannot be discounted as a cause of higher extinction rates of island than mainland populations. Keywords:allozymes,conservation, endemic species, extinction, genetic variation, islands. of endemic plant species as threatened on 15 islands. Introduction Human activities have been the major cause of Islandpopulations have a much higher risk of species extinctions on islands in the past 50000 years extinction than mainland populations (Diamond, (Olson, 1989) through over-exploitation, habitat loss 1984; Vitousek, 1988; Flesness, 1989; Case et al., and introduced species.
    [Show full text]
  • Darwin, Plants and Portugal Autor(Es): Paiva, Jorge Publicado
    Darwin, plants and Portugal Autor(es): Paiva, Jorge Publicado por: Imprensa da Universidade de Coimbra URL persistente: URI:http://hdl.handle.net/10316.2/31257 DOI: DOI:http://dx.doi.org/10.14195/978-989-26-0342-1_4 Accessed : 30-Sep-2021 22:17:11 A navegação consulta e descarregamento dos títulos inseridos nas Bibliotecas Digitais UC Digitalis, UC Pombalina e UC Impactum, pressupõem a aceitação plena e sem reservas dos Termos e Condições de Uso destas Bibliotecas Digitais, disponíveis em https://digitalis.uc.pt/pt-pt/termos. Conforme exposto nos referidos Termos e Condições de Uso, o descarregamento de títulos de acesso restrito requer uma licença válida de autorização devendo o utilizador aceder ao(s) documento(s) a partir de um endereço de IP da instituição detentora da supramencionada licença. Ao utilizador é apenas permitido o descarregamento para uso pessoal, pelo que o emprego do(s) título(s) descarregado(s) para outro fim, designadamente comercial, carece de autorização do respetivo autor ou editor da obra. Na medida em que todas as obras da UC Digitalis se encontram protegidas pelo Código do Direito de Autor e Direitos Conexos e demais legislação aplicável, toda a cópia, parcial ou total, deste documento, nos casos em que é legalmente admitida, deverá conter ou fazer-se acompanhar por este aviso. pombalina.uc.pt digitalis.uc.pt A presente colecção reúne originais de cultura científica resultantes da investigação no Ana Leonor Pereira | João Rui Pita Pedro Ricardo Fonseca Ana Leonor Pereira One hundred and fifty years ago, more precisely on the 24th of November of 1859, Darwin âmbito da história das ciências e das técnicas, da história da farmácia, da história da Darwin, introduced a new paradigm in natural history with the publication of On the origin of species medicina e de outras dimensões das práticas científicas nas diferentes interfaces com a João Rui Pita by means of natural selection, or the preservation of favoured races in the struggle for life.
    [Show full text]
  • QTL Mapping for Flowering-Time and Photoperiod Insensitivity of Cotton Gossypium Darwinii Watt
    RESEARCH ARTICLE QTL mapping for flowering-time and photoperiod insensitivity of cotton Gossypium darwinii Watt Fakhriddin N. Kushanov1☯, Zabardast T. Buriev1, Shukhrat E. Shermatov1, Ozod S. Turaev1, Tokhir M. Norov1, Alan E. Pepper2, Sukumar Saha3, Mauricio Ulloa4, John Z. Yu5, Johnie N. Jenkins3, Abdusattor Abdukarimov1, Ibrokhim Y. Abdurakhmonov1☯* 1 Laboratory of Structural and Functional Genomics, Center of Genomics and Bioinformatics, Academy of Sciences of the Republic of Uzbekistan, Tashkent, Uzbekistan, 2 Department of Biology, Texas A&M a1111111111 University, Colleges Station, Texas, United States of America, 3 Crop Science Research Laboratory, United a1111111111 States Department of Agriculture-Agricultural Research Services, Starkville, Mississippi, United States of a1111111111 America, 4 Plant Stress and Germplasm Development Research, United States Department of Agriculture- a1111111111 Agricultural Research Services, Lubbock, Texas, United States of America, 5 Southern Plains Agricultural a1111111111 Research Center, United States Department of Agriculture-Agricultural Research Services, College Station, Texas, United States of America ☯ These authors contributed equally to this work. * [email protected] OPEN ACCESS Citation: Kushanov FN, Buriev ZT, Shermatov SE, Abstract Turaev OS, Norov TM, Pepper AE, et al. (2017) QTL mapping for flowering-time and photoperiod Most wild and semi-wild species of the genus Gossypium are exhibit photoperiod-sensitive insensitivity of cotton Gossypium darwinii Watt. PLoS ONE 12(10): e0186240. https://doi.org/ flowering. The wild germplasm cotton is a valuable source of genes for genetic improvement 10.1371/journal.pone.0186240 of modern cotton cultivars. A bi-parental cotton population segregating for photoperiodic Editor: Turgay Unver, Dokuz Eylul Universitesi, flowering was developed by crossing a photoperiod insensitive irradiation mutant line with TURKEY its pre-mutagenesis photoperiodic wild-type G.
    [Show full text]
  • Cotton Genetic Resources. a Review Mehboob-Ur-Rahman, Shaheen, Tabbasam, Muhammad Iqbal, Ashraf, Zafar, Andrew Paterson
    Cotton genetic resources. A review Mehboob-Ur-Rahman, Shaheen, Tabbasam, Muhammad Iqbal, Ashraf, Zafar, Andrew Paterson To cite this version: Mehboob-Ur-Rahman, Shaheen, Tabbasam, Muhammad Iqbal, Ashraf, et al.. Cotton genetic re- sources. A review. Agronomy for Sustainable Development, Springer Verlag/EDP Sciences/INRA, 2012, 32 (2), pp.419-432. 10.1007/s13593-011-0051-z. hal-00930526 HAL Id: hal-00930526 https://hal.archives-ouvertes.fr/hal-00930526 Submitted on 1 Jan 2012 HAL is a multi-disciplinary open access L’archive ouverte pluridisciplinaire HAL, est archive for the deposit and dissemination of sci- destinée au dépôt et à la diffusion de documents entific research documents, whether they are pub- scientifiques de niveau recherche, publiés ou non, lished or not. The documents may come from émanant des établissements d’enseignement et de teaching and research institutions in France or recherche français ou étrangers, des laboratoires abroad, or from public or private research centers. publics ou privés. Agron. Sustain. Dev. (2012) 32:419–432 DOI 10.1007/s13593-011-0051-z REVIEW ARTICLE Cotton genetic resources. A review Mehboob-ur-Rahman & Tayyaba Shaheen & Nabila Tabbasam & Muhammad Atif Iqbal & Muhammad Ashraf & Yusuf Zafar & Andrew H. Paterson Accepted: 29 July 2011 /Published online: 13 October 2011 # INRA and Springer-Verlag, France 2011 Abstract Since 6000 BC, cotton has been cultivated for lint Much of the genetic diversity among G. barbadense cultivars fiber, which now dominates the natural textile industry is attributed to the introgression of G. hirsutum alleles. This worldwide. Common resources such as an integrated web process highlights the importance of introgression of new database, a microsatellite database, and comparative quantita- alleles from accessions of all the Gossypium species into tive trait loci (QTL) resources for Gossypium have accelerated cultivated cotton species.
    [Show full text]
  • Evolution and Natural History of the Cotton Genus
    Evolution and Natural History of the Cotton Genus Jonathan F. Wendel, Curt Brubaker, Ines Alvarez, Richard Cronn, and James McD. Stewart Abstract We present an overview of the evolution and diversity in Gossypium (the cotton genus). This framework facilitates insight into fundamental aspects of plant biology, provides the necessary underpinnings for effective utilization of cotton genetic resources, and guides exploration of the genomic basis of morphological diversity in the genus. More than 50 species of Gossypium are distributed in arid to semi-arid regions of the tropics and subtropics. Included are four species that independently have been domesticated for their fiber, two each in Africa-Asia and the Americas. Gossypium species exhibit extraordin- ary morphological variation, ranging from trailing herbaceous perennials to 15 m trees with a diverse array of reproductive and vegetative characteris- tics. A parallel level of cytogenetic and genomic diversity has arisen during the global radiation of the genus, leading to the evolution of eight groups of diploid (n 13) species (genome groups A through G, and K). Data implicate an origin for¼Gossypium about 5–10 million years ago and a rapid early diversification of the major genome groups. Allopolyploid cottons appear to have arisen within the last 1–2 million years, as a consequence of trans-oceanic dispersal of an A-genome taxon to the New World followed by hybridization with an indigen- ous D-genome diploid. Subsequent to formation, allopolyploids radiated into three modern lineages, two of which contain the commercially important species G. hirsutum and G. barbadense. 1 Introduction to Gossypium diversity Because the cotton genus (Gossypium L.) is so important to economies around the world, it has long attracted the attention of agricultural scientists, taxono- mists, and evolutionary biologists.
    [Show full text]
  • Downloaded from Genbank on That Full Plastid Genomes Are Not Sufficient to Reject Al- February 28, 2012
    Ruhfel et al. BMC Evolutionary Biology 2014, 14:23 http://www.biomedcentral.com/1471-2148/14/23 RESEARCH ARTICLE Open Access From algae to angiosperms–inferring the phylogeny of green plants (Viridiplantae) from 360 plastid genomes Brad R Ruhfel1*, Matthew A Gitzendanner2,3,4, Pamela S Soltis3,4, Douglas E Soltis2,3,4 and J Gordon Burleigh2,4 Abstract Background: Next-generation sequencing has provided a wealth of plastid genome sequence data from an increasingly diverse set of green plants (Viridiplantae). Although these data have helped resolve the phylogeny of numerous clades (e.g., green algae, angiosperms, and gymnosperms), their utility for inferring relationships across all green plants is uncertain. Viridiplantae originated 700-1500 million years ago and may comprise as many as 500,000 species. This clade represents a major source of photosynthetic carbon and contains an immense diversity of life forms, including some of the smallest and largest eukaryotes. Here we explore the limits and challenges of inferring a comprehensive green plant phylogeny from available complete or nearly complete plastid genome sequence data. Results: We assembled protein-coding sequence data for 78 genes from 360 diverse green plant taxa with complete or nearly complete plastid genome sequences available from GenBank. Phylogenetic analyses of the plastid data recovered well-supported backbone relationships and strong support for relationships that were not observed in previous analyses of major subclades within Viridiplantae. However, there also is evidence of systematic error in some analyses. In several instances we obtained strongly supported but conflicting topologies from analyses of nucleotides versus amino acid characters, and the considerable variation in GC content among lineages and within single genomes affected the phylogenetic placement of several taxa.
    [Show full text]
  • The Utility of Graph Clustering of 5S Ribosomal DNA Homoeologs In
    The Utility of Graph Clustering of 5S Ribosomal DNA Homoeologs in Plant Allopolyploids, Homoploid Hybrids, and Cryptic Introgressants Sònia Garcia, Jonathan F Wendel, Natalia Borowska-Zuchowska, Malika Ainouche, Alena Kuderova, Ales Kovarik To cite this version: Sònia Garcia, Jonathan F Wendel, Natalia Borowska-Zuchowska, Malika Ainouche, Alena Kuderova, et al.. The Utility of Graph Clustering of 5S Ribosomal DNA Homoeologs in Plant Allopolyploids, Homoploid Hybrids, and Cryptic Introgressants. Frontiers in Plant Science, Frontiers, 2020, 11, pp.41. 10.3389/fpls.2020.00041. hal-02498513 HAL Id: hal-02498513 https://hal-univ-rennes1.archives-ouvertes.fr/hal-02498513 Submitted on 15 Jul 2020 HAL is a multi-disciplinary open access L’archive ouverte pluridisciplinaire HAL, est archive for the deposit and dissemination of sci- destinée au dépôt et à la diffusion de documents entific research documents, whether they are pub- scientifiques de niveau recherche, publiés ou non, lished or not. The documents may come from émanant des établissements d’enseignement et de teaching and research institutions in France or recherche français ou étrangers, des laboratoires abroad, or from public or private research centers. publics ou privés. ORIGINAL RESEARCH published: 10 February 2020 doi: 10.3389/fpls.2020.00041 The Utility of Graph Clustering of 5S Ribosomal DNA Homoeologs in Plant Allopolyploids, Homoploid Hybrids, and Cryptic Introgressants Sònia Garcia 1,2, Jonathan F. Wendel 3, Natalia Borowska-Zuchowska 4, Malika Aïnouche 5, Alena Kuderova 2
    [Show full text]
  • Genetics and Genomics of Cotton (Plant Genetics and Genomics
    Plant Genetics and Genomics: Crops and Models Volume 3 Plant Genetics and Genomics: Crops and Models Series Editor: Richard A. Jorgensen Forthcoming and planned volumes Vol. 1 Genomics of Tropical Crop Plants (eds: Paul Moore/Ray Ming) Vol. 2 Genetics and Genomics of Soybean (ed: Gary Stacey) Vol. 3 Genetics and Genomics of Cotton (ed: Andrew Paterson) Vol. 4 Plant Cytogenetics: Genome Structure and Chromosome Function (eds: Hank Bass/Jim Birchler) Vol. 5 Plant Cytogenetics: Methods and Instruction (eds: Hank Bass/Jim Birchler) Vol. 6 Genetics and Genomics of the Rosaceae (eds: Kevin Folta/Sue Gardiner) Vol. 7 Genetics and Genomics of the Triticeae (ed: Catherine Feuillet/Gary Muehlbauer) Vol. 8 Genomics of Poplar (ed: Stefan Janssen et al.) Andrew H. Paterson Editor Genetics and Genomics of Cotton 13 Editor Andrew H. Paterson University of Georgia Plant Genome Mapping Laboratory 111 Riverbend Road Athens, GA 30602 USA [email protected] ISBN 978-0-387-70809-6 e-ISBN 978-0-387-70810-2 DOI 10.1007/978-0-387-70810-2 Library of Congress Control Number: 2008941164 # Springer ScienceþBusiness Media, LLC 2009 All rights reserved. This work may not be translated or copied in whole or in part without the written permission of the publisher (Springer ScienceþBusiness Media, LLC, 233 Spring Street, New York, NY 10013, USA), except for brief excerpts in connection with reviews or scholarly analysis. Use in connection with any form of information storage and retrieval, electronic adaptation, computer software, or by similar or dissimilar methodology now known or hereafter developed is forbidden. The use in this publication of trade names, trademarks, service marks, and similar terms, even if they are not identified as such, is not to be taken as an expression of opinion as to whether or not they are subject to proprietary rights.
    [Show full text]
  • The Status of the Endemic Flora of Galapagos: the Number of Threatened Species Is Increasing Alan Tye Charles Darwin Foundation
    BIODIVERSITY AND BIOPHYSICAL RESOURSES The status of the endemic flora of Galapagos: the number of threatened species is increasing Alan Tye Charles Darwin Foundation The endemic species of Galapagos are of the greatest Results conservation interest because their future depends entirely on their continued existence in the islands. A The new evaluations cover 180 species, compared complete evaluation of the threat status of the endemic with 175 in 2002, eight of which were Not Evaluated vascular plants (flowering plants and ferns) of (IUCN category NE) 1. Of the 180 evaluated in 2006, Galapagos was published in the last Galapagos nine species were placed in the IUCN category Data Report 1. A re-evaluation of their threat status at full Deficient (DD) owing to uncertainties regarding the species level was carried out during 2006, as a contri - limits of the taxon and therefore its distribution. For bution to the Ecuadorian national plant Red Data the 171 species that were fully evaluated, Table 1 Book 2. The present report summarises the results of summarizes the results of the latest re-evaluation and this re-evaluation and assesses changes since 2002. the previous full evaluation in 2002 1. No species were As in the last report 1, all species have been evaluated classified as EW (Extinct in the Wild). Table 1 gives the under the IUCN criteria 3, using the same methods as numbers and percentages of species in each category, by Tye 4,5 . These threat evaluations are carried out and reveals that 100 of the 168 extant species that under the auspices of the Galapagos Plant Specialist were evaluated (excluding the three extinct and the Group of IUCN, and become the official evaluations nine DD species) are threatened (60%).
    [Show full text]