Multi-locus DNA sequence variation in a complex of four leaf beetle species with parapatric distributions: mitochondrial and nuclear introgressions reveal recent hybridization.

Abstract:

:While the importance for including multiple independent loci in phylogeographic studies is largely acknowledged, a majority of these still focus on a single species. We combine the study of multilocus DNA sequence variation (one mitochondrial and four unlinked nuclear fragments) at both the inter- and intraspecific levels to explore the evolutionary history of four closely related specialized herbivorous insects (Chrysomelidae, genus Gonioctena). Analyzing the sequences for samples collected across their entire European range allows us to (1) characterize the genetic boundaries among species, i.e. the degree of lineage sorting, (2) infer their phylogenetic relationships and (3) explore reproductive barriers among them in regions where their ranges overlap. For two sister species, we identify multiple independent cases of unidirectional transfer of genetic material (introgression) at both mitochondrial and nuclear loci, demonstrating recent hybridization between both species in the overlapping regions of their range. The highlighted pattern of genetic variation suggests that Gonioctena intermedia expanded its range into that of G. quinquepunctata, and that both species may experience mutual exclusion. Overall, this study illustrates that interpreting intraspecific genetic variation for the purpose of evolutionary inference without the broader context of the other closely related species could lead to erroneous conclusions.

journal_name

Mol Phylogenet Evol

authors

Quinzin MC,Mardulyn P

doi

10.1016/j.ympev.2014.05.003

subject

Has Abstract

pub_date

2014-09-01 00:00:00

pages

14-24

eissn

1055-7903

issn

1095-9513

pii

S1055-7903(14)00162-6

journal_volume

78

pub_type

杂志文章
  • Arnica (Asteraceae) phylogeny revisited using RPB2: complex patterns and multiple d-paralogues.

    abstract::The region coding for the second largest subunit of RNA polymerase II (RPB2) was explored for resolving interspecific relationships in Arnica and lower level taxa in general. The region between exons 17 and 23 was cloned and sequenced for 33 accessions of Arnica and four outgroup taxa. Three paralogues of the RPB2-d c...

    journal_title:Molecular phylogenetics and evolution

    pub_type: 杂志文章

    doi:10.1016/j.ympev.2012.02.032

    authors: Ekenäs C,Heidari N,Andreasen K

    更新日期:2012-08-01 00:00:00

  • A comprehensive molecular phylogeny of spoon worms (Echiura, Annelida): Implications for morphological evolution, the origin of dwarf males, and habitat shifts.

    abstract::Echiurans (spoon worms) are derived annelids that have secondarily lost segmentation. Recently, two molecular phylogenetic studies were performed to resolve the interfamily relationship of echiurans. However, the tree topologies were incongruent and taxon sampling was limited in both the studies. Thus, the phylogeneti...

    journal_title:Molecular phylogenetics and evolution

    pub_type: 杂志文章

    doi:10.1016/j.ympev.2016.03.003

    authors: Goto R

    更新日期:2016-06-01 00:00:00

  • Analysis of the distribution of bootstrap tree lengths using the maximum parsimony method.

    abstract::The bootstrap is an important tool for estimating the confidence interval of monophyletic groups within phylogenies. Although bootstrap analyses are used in most evolutionary studies, there is no clear consensus as how best to interpret bootstrap probability values. To study further the bootstrap method, nine small su...

    journal_title:Molecular phylogenetics and evolution

    pub_type: 杂志文章

    doi:10.1006/mpev.1996.0084

    authors: Bhattacharya D

    更新日期:1996-12-01 00:00:00

  • Combination of Sanger and target-enrichment markers supports revised generic delimitation in the problematic 'Urera clade' of the nettle family (Urticaceae).

    abstract::Urera Gaudich, s.l.. is a pantropical genus comprising c. 35 species of trees, shrubs, and vines. It has a long history of taxonomic uncertainty, and is repeatedly recovered as polyphyletic within a poorly resolved complex of genera in the Urticeae tribe of the nettle family (Urticaceae). To provide generic delimitati...

    journal_title:Molecular phylogenetics and evolution

    pub_type: 杂志文章

    doi:10.1016/j.ympev.2020.107008

    authors: Wells T,Maurin O,Dodsworth S,Friis I,Cowan R,Epitawalage N,Brewer G,Forest F,Baker WJ,Monro AK

    更新日期:2020-11-04 00:00:00

  • Phylogenetic comparison of metabolic capacities of organisms at genome level.

    abstract::Horizontal gene transfer (HGT) has been shown to widely spread in organisms by comparative genomic studies. However, its effect on the phylogenetic relationship of organisms, especially at a system level of different cellular functions, is still not well understood. In this work, we have constructed phylogenetic trees...

    journal_title:Molecular phylogenetics and evolution

    pub_type: 杂志文章

    doi:10.1016/j.ympev.2003.08.011

    authors: Ma HW,Zeng AP

    更新日期:2004-04-01 00:00:00

  • Detection of homologous recombination among bacteriophage P2 relatives.

    abstract::Sequencing of five late genes from 18 isolates of P2-like bacteriophages showed that these are at least 96% identical to the genes of phage P2. A maximum-parsimony phylogenetic analysis of these genes showed excess homoplasy of a magnitude three to six times higher than that expected. Examination of the distribution o...

    journal_title:Molecular phylogenetics and evolution

    pub_type: 杂志文章

    doi:10.1006/mpev.2001.1020

    authors: Nilsson AS,Haggård-Ljungquist E

    更新日期:2001-11-01 00:00:00

  • Pleistocene land bridges act as semipermeable agents of avian gene flow in Wallacea.

    abstract::Cyclical periods of global cooling have been important drivers of biotic differentiation throughout the Quaternary. Ice age-induced sea level fluctuations can lead to changing patterns of land connections, both facilitating and disrupting gene flow. In this study, we test if species with differing life histories are d...

    journal_title:Molecular phylogenetics and evolution

    pub_type: 杂志文章

    doi:10.1016/j.ympev.2018.03.032

    authors: Garg KM,Chattopadhyay B,Wilton PR,Malia Prawiradilaga D,Rheindt FE

    更新日期:2018-08-01 00:00:00

  • Origin of the 1918 Spanish influenza virus: a comparative genomic analysis.

    abstract::To test the avian-origin hypothesis of the 1918 Spanish influenza virus we surveyed influenza sequences from a broad taxonomic distribution and collected 65 full-length genomes representing avian, human and "classic" swine H1N1 lineages in addition to numerous other swine (H1N2, H3N1, and H3N2), human (H2N2, H3N2, and...

    journal_title:Molecular phylogenetics and evolution

    pub_type: 杂志文章

    doi:10.1016/j.ympev.2008.02.003

    authors: Vana G,Westover KM

    更新日期:2008-06-01 00:00:00

  • Multilocus species-delimitation in the Xerotyphlops vermicularis (Reptilia: Typhlopidae) species complex.

    abstract::Scolecophidia (worm snakes) are a vertebrate group with high ecomorphological conservatism due to their burrowing lifestyle. The Eurasian or Greek blindsnake Xerotyphlops vermicularis is their only European representative, a species-complex with an old diversification history. However, its systematics and taxonomy has...

    journal_title:Molecular phylogenetics and evolution

    pub_type: 杂志文章

    doi:10.1016/j.ympev.2020.106922

    authors: Kornilios P,Jablonski D,Sadek RA,Kumlutaş Y,Olgun K,Avci A,Ilgaz C

    更新日期:2020-11-01 00:00:00

  • Molecular systematics and biogeography of aridland gnatcatchers (genus Polioptila) and evidence supporting species status of the California gnatcatcher (Polioptila california).

    abstract::Over 2000 basepairs of mitochondrial DNA (mtDNA) sequences were compared to (1) examine evolution in protein coding versus noncoding [control region (CR)] segments, and (2) test the species-level distinctiveness of the California gnatcatcher (Polioptila californica) and clarify its phylogenetic and biogeographic relat...

    journal_title:Molecular phylogenetics and evolution

    pub_type: 杂志文章

    doi:10.1006/mpev.1997.0444

    authors: Zink RM,Blackwell RC

    更新日期:1998-02-01 00:00:00

  • New multilocus phylogeny reorganises the family Macrobiotidae (Eutardigrada) and unveils complex morphological evolution of the Macrobiotus hufelandi group.

    abstract::The family Macrobiotidae is one of the most speciose and diverse groups among tardigrades. Although there have been attempts to reconstruct the phylogeny of this family, the evolutionary relationships within Macrobiotidae are only superficially determined as available genetic data cover only a small fraction of this v...

    journal_title:Molecular phylogenetics and evolution

    pub_type: 杂志文章

    doi:10.1016/j.ympev.2020.106987

    authors: Stec D,Vecchi M,Calhim S,Michalczyk Ł

    更新日期:2020-10-12 00:00:00

  • Molecular resolution of the systematics of a problematic group of fishes (Teleostei: Osmeridae) and evidence for morphological homoplasy.

    abstract::Relationships among the species of Northern Hemisphere smelts (family Osmeridae) have long been debated in the fish systematics literature. Eight independent studies based on morphological characters failed to reach any consensus on osmerid interrelationships. We reconstruct the osmerid phylogeny based on DNA sequence...

    journal_title:Molecular phylogenetics and evolution

    pub_type: 杂志文章

    doi:10.1016/j.ympev.2008.10.021

    authors: Ilves KL,Taylor EB

    更新日期:2009-01-01 00:00:00

  • A dated molecular phylogeny of mite harvestmen (Arachnida: Opiliones: Cyphophthalmi) elucidates ancient diversification dynamics in the Australian Wet Tropics.

    abstract::Austropurcellia, a genus of dispersal-limited arachnids endemic to isolated patches of coastal rainforest in Queensland, Australia, has a remarkable biogeographic history. The genus is a member of the family Pettalidae, which has a classical temperate Gondwanan distribution; previous work has suggested that Austropurc...

    journal_title:Molecular phylogenetics and evolution

    pub_type: 杂志文章

    doi:10.1016/j.ympev.2018.06.029

    authors: Oberski JT,Sharma PP,Jay KR,Coblens MJ,Lemon KA,Johnson JE,Boyer SL

    更新日期:2018-10-01 00:00:00

  • Species tree estimation of North American chorus frogs (Hylidae: Pseudacris) with parallel tagged amplicon sequencing.

    abstract::The field of phylogenetics is changing rapidly with the application of high-throughput sequencing to non-model organisms. Cost-effective use of this technology for phylogenetic studies, which often include a relatively small portion of the genome but several taxa, requires strategies for genome partitioning and sequen...

    journal_title:Molecular phylogenetics and evolution

    pub_type: 杂志文章

    doi:10.1016/j.ympev.2014.02.007

    authors: Barrow LN,Ralicki HF,Emme SA,Lemmon EM

    更新日期:2014-06-01 00:00:00

  • Dispersing towards Madagascar: Biogeography and evolution of the Madagascan endemics of the Spermacoceae tribe (Rubiaceae).

    abstract::Despite the close proximity of the African mainland, dispersal of plant lineages towards Madagascar remains intriguing. The composition of the Madagascan flora is rather mixed and shows besides African representatives, also floral elements of India, Southeast Asia, Australia, and the Neotropics. Due to its proportiona...

    journal_title:Molecular phylogenetics and evolution

    pub_type: 杂志文章

    doi:10.1016/j.ympev.2015.10.024

    authors: Janssens SB,Groeninckx I,De Block PJ,Verstraete B,Smets EF,Dessein S

    更新日期:2016-02-01 00:00:00

  • Pinpointing cryptic borders: Fine-scale phylogeography and genetic landscape analysis of the Hormogaster elisae complex (Oligochaeta, Hormogastridae).

    abstract::Spatial and temporal aspects of the evolution of cryptic species complexes have received less attention than species delimitation within them. The phylogeography of the cryptic complex Hormogaster elisae (Oligochaeta, Hormogastridae) lacks knowledge on several aspects, including the small-scale distribution of its lin...

    journal_title:Molecular phylogenetics and evolution

    pub_type: 杂志文章

    doi:10.1016/j.ympev.2017.05.005

    authors: Marchán DF,Fernández R,de Sosa I,Díaz Cosín DJ,Novo M

    更新日期:2017-07-01 00:00:00

  • Molecular relationships among European samples of Reticulitermes (Isoptera, Rhinotermitidae).

    abstract::Taxonomy and phyletic relationships of the European termites of the holarctic genus Reticulitermes are highly debated and poorly known. Sequencing analyses of the complete cytochrome oxidase subunit II and of a fragment of 16S rDNA mitochondrial genes were performed on 21 Italian and French populations. Distance, pars...

    journal_title:Molecular phylogenetics and evolution

    pub_type: 杂志文章

    doi:10.1006/mpev.2001.1068

    authors: Marini M,Mantovani B

    更新日期:2002-03-01 00:00:00

  • Multi-locus fossil-calibrated phylogeny, biogeography and a subgeneric revision of the Margaritiferidae (Mollusca: Bivalvia: Unionoida).

    abstract::The taxonomy and biogeographic history of the bivalve family Margaritiferidae are controversial because previous molecular studies did not provide a well-resolved phylogenetic framework for these enigmatic freshwater mussels that have extensive but disjunct distribution in North America, Eurasia and North Africa. In t...

    journal_title:Molecular phylogenetics and evolution

    pub_type: 杂志文章

    doi:10.1016/j.ympev.2016.07.020

    authors: Bolotov IN,Vikhrev IV,Bespalaya YV,Gofarov MY,Kondakov AV,Konopleva ES,Bolotov NN,Lyubas AA

    更新日期:2016-10-01 00:00:00

  • Molecular phylogeny and historical biogeography of the Anatolian lizard Apathya (Squamata, Lacertidae).

    abstract::Apathya is a lacertid genus occurring mainly in south-east Turkey and its adjacent regions (part of Iran and Iraq). So far two morphological species have been attributed to the genus; A. cappadocica (with five subspecies, A. c.cappadocica, A. c.muhtari, A. c.schmidtlerorum, A. c. urmiana and A. c.wolteri) and A.yassuj...

    journal_title:Molecular phylogenetics and evolution

    pub_type: 杂志文章

    doi:10.1016/j.ympev.2012.12.002

    authors: Kapli P,Botoni D,Ilgaz C,Kumlutaş Y,Avcı A,Rastegar-Pouyani N,Fathinia B,Lymberakis P,Ahmadzadeh F,Poulakakis N

    更新日期:2013-03-01 00:00:00

  • Molecular phylogeny and biogeography of the Qinghai-Tibet Plateau endemic Nannoglottis (Asteraceae).

    abstract::All taxa endemic to the Qinghai-Tibet Plateau are hypothesized to have originated in situ or from immediately adjacent areas because of the relatively recent formation of the plateau since the Pliocene, followed by the large-scaled biota extinction and recession caused by the Quaternary ice sheet. However, identificat...

    journal_title:Molecular phylogenetics and evolution

    pub_type: 杂志文章

    doi:10.1016/s1055-7903(02)00039-8

    authors: Liu JQ,Gao TG,Chen ZD,Lu AM

    更新日期:2002-06-01 00:00:00

  • Full modeling versus summarizing gene-tree uncertainty: method choice and species-tree accuracy.

    abstract::With the proliferation of species-tree methods, empiricists now have to confront the daunting task of method choice. Such decisions might be made based on theoretical considerations alone. However, the messiness of real data means that theoretical ideals may not hold in practice (e.g., with convergence of complicated ...

    journal_title:Molecular phylogenetics and evolution

    pub_type: 杂志文章

    doi:10.1016/j.ympev.2012.07.004

    authors: Knowles LL,Lanier HC,Klimov PB,He Q

    更新日期:2012-11-01 00:00:00

  • Molecules and morphology reveal 'new' widespread North American freshwater mussel species (Bivalvia: Unionidae).

    abstract::In the Family Unionidae, the greatest radiation of freshwater mussels, malacologists have been misled by extreme intraspecific shell variation and conversely interspecific conchological stasis or convergence. We characterized the genetic and morphological diversity of two phenotypes of Lampsilis teres from specimens (...

    journal_title:Molecular phylogenetics and evolution

    pub_type: 杂志文章

    doi:10.1016/j.ympev.2019.05.029

    authors: Keogh SM,Simons AM

    更新日期:2019-09-01 00:00:00

  • Molecular genetic analysis and ecological evidence reveals multiple cryptic species among thynnine wasp pollinators of sexually deceptive orchids.

    abstract::Sexually deceptive Chiloglottis orchids lure their male thynnine wasp pollinators to the flower by emitting semiochemicals that mimic the specific sex pheromone of the wasp. Sexual deception is possible because chemical rather than visual cues play the key role in wasp mate search, suggesting that cryptic wasp species...

    journal_title:Molecular phylogenetics and evolution

    pub_type: 杂志文章

    doi:10.1016/j.ympev.2011.02.004

    authors: Griffiths KE,Trueman JW,Brown GR,Peakall R

    更新日期:2011-04-01 00:00:00

  • A multilocus molecular phylogeny of Fasciolariidae (Neogastropoda: Buccinoidea).

    abstract::The neogastropod family Fasciolariidae Gray, 1853 - tulips, horse-conchs, spindles, etc., comprises important representatives of tropical and subtropical molluscan assemblages, with over 500 species in the subfamilies Fasciolariinae Gray, 1853, Fusininae Wrigley, 1927 and Peristerniinae Tryon, 1880. Fasciolariids have...

    journal_title:Molecular phylogenetics and evolution

    pub_type: 杂志文章

    doi:10.1016/j.ympev.2016.03.025

    authors: Couto DR,Bouchet P,Kantor YI,Simone LRL,Giribet G

    更新日期:2016-06-01 00:00:00

  • Diversification patterns in cosmopolitan earthworms: similar mode but different tempo.

    abstract::Comparative phylogeography of widespread species that span the same geographic areas can elucidate the influence of historical events on current patterns of biodiversity, identify patterns of co-vicariance, and therefore aid the understanding of general evolutionary processes. Soil-dwelling animals present characteris...

    journal_title:Molecular phylogenetics and evolution

    pub_type: 杂志文章

    doi:10.1016/j.ympev.2015.07.017

    authors: Fernández R,Novo M,Marchán DF,Díaz Cosín DJ

    更新日期:2016-01-01 00:00:00

  • Systematics and evolutionary history of butterflies in the "Taygetis clade" (Nymphalidae: Satyrinae: Euptychiina): towards a better understanding of Neotropical biogeography.

    abstract::The so-called "Taygetis clade" is a group of exclusively Neotropical butterflies classified within Euptychiina, one of the largest subtribes in the subfamily Satyrinae. Since the distribution of the ten genera belonging to this group ranges throughout the entire Neotropics, from lowlands to lower montane habitats, it ...

    journal_title:Molecular phylogenetics and evolution

    pub_type: 杂志文章

    doi:10.1016/j.ympev.2012.09.005

    authors: Matos-Maraví PF,Peña C,Willmott KR,Freitas AV,Wahlberg N

    更新日期:2013-01-01 00:00:00

  • A phylogenetic blueprint for a modern whale.

    abstract::The emergence of Cetacea in the Paleogene represents one of the most profound macroevolutionary transitions within Mammalia. The move from a terrestrial habitat to a committed aquatic lifestyle engendered wholesale changes in anatomy, physiology, and behavior. The results of this remarkable transformation are extant w...

    journal_title:Molecular phylogenetics and evolution

    pub_type: 杂志文章

    doi:10.1016/j.ympev.2012.10.012

    authors: Gatesy J,Geisler JH,Chang J,Buell C,Berta A,Meredith RW,Springer MS,McGowen MR

    更新日期:2013-02-01 00:00:00

  • Analyzing the functional divergence of Slo1 and Slo3 channel subfamilies.

    abstract::Slo1 and Slo3 encode close paralogues of the Slo potassium (K+) channels family. Despite their evolutionary relatedness, Slo1 and Slo3 channels show marked functional differences and evolutionary dynamics. Whereas Slo1 is a highly conserved and widely expressed channel, Slo3 is a rapidly evolving channel restricted to...

    journal_title:Molecular phylogenetics and evolution

    pub_type: 杂志文章

    doi:10.1016/j.ympev.2018.12.026

    authors: Vicens A,Vinuesa P,Arenas M,Treviño CL

    更新日期:2019-04-01 00:00:00

  • Phylogenetic implications of mitogenome rearrangements in East Asian potamiscine freshwater crabs (Brachyura: Potamidae).

    abstract::We present here a combined mitogenome gene order dataset totalling 62% of the known genera of East Asian potamiscine freshwater crabs that includes first-time mitogenome data for 14 species and gene order data from 37 other species of potamiscines. A surprisingly high number of mitogenome gene order rearrangements wer...

    journal_title:Molecular phylogenetics and evolution

    pub_type: 杂志文章

    doi:10.1016/j.ympev.2019.106669

    authors: Zhang Z,Xing Y,Cheng J,Pan D,Lv L,Cumberlidge N,Sun H

    更新日期:2020-02-01 00:00:00

  • Molecular markers reveal genetic isolation and phylogeography of the S and F intersterility groups of the wood-decay fungus Heterobasidion annosum.

    abstract::The root-rot fungus Heterobasidion annosum (Fr.) Bref. species complex consists of three intersterility groups (S, F, and P), separated by their host affinity. The phylogenetic relationship of the species complex was studied, with the focus on the S and F groups, by comparing DNA sequences of four nuclear gene fragmen...

    journal_title:Molecular phylogenetics and evolution

    pub_type: 杂志文章

    doi:10.1016/s1055-7903(03)00087-3

    authors: Johannesson H,Stenlid J

    更新日期:2003-10-01 00:00:00