Evidence for recombination in the microcystin synthetase (mcy) genes of toxic cyanobacteria Microcystis spp.

Abstract:

:Recombination has been suggested to be an important factor for the genetic variation of bacterial genes, but few studies have dealt with intragenic recombination between the same or closely related species of cyanobacteria. Here we provide strong evidence for recombination in the microcystin synthetase (mcy) gene cluster of the toxic cyanobacteria Microcystis spp. This gene cluster contains 10 genes (mcyA to J) that encode a mixed polyketide synthase (PKS)/nonribosomal peptide synthetase (NRPS) complex. mcy gene sequences were determined for four selected regions (within mcyA, D, G, and J) within the mcy gene cluster from 1 Canadian and 10 Asian toxic Microcystis and compared with previously published mcy sequences. Split decomposition analysis indicated a reticulate phylogeny of mcyA, and several potential recombination tracts of mcyA were identified by the RDP analysis and a runs test implemented in GENECONV. In contrast, no recombination was detected in the mcyD, G, and J sequences. However, discrepancies among the four mcy gene genealogies were evident from the results of independent split decomposition analyses, which were further supported by incongruence length difference (ILD) tests. Taken together, these findings suggest that both intragenic and intergenic recombination within the mcy gene cluster contributes to the genetic diversity of the mcy genes of Microcystis spp.

journal_name

J Mol Evol

authors

Tanabe Y,Kaya K,Watanabe MM

doi

10.1007/s00239-004-2583-1

keywords:

subject

Has Abstract

pub_date

2004-06-01 00:00:00

pages

633-41

issue

6

eissn

0022-2844

issn

1432-1432

journal_volume

58

pub_type

杂志文章
  • Diversification of the microtubule system in the early stage of eukaryote evolution: elongation factor 1 alpha and alpha-tubulin protein phylogeny of termite symbiotic oxymonad and hypermastigote protists.

    abstract::The symbiotic protists of the lower termite have been regarded as a model of early-branched eukaryotes because of their simple cellular systems and morphological features. However, cultivation of these symbiotic protists is very difficult. For this reason, these interesting protists have not been well characterized in...

    journal_title:Journal of molecular evolution

    pub_type: 杂志文章

    doi:10.1007/s002390010129

    authors: Moriya S,Tanaka K,Ohkuma M,Sugano S,Kudo T

    更新日期:2001-01-01 00:00:00

  • Comparative nucleotide diversity across North American and European populus species.

    abstract::Nucleotide polymorphisms in two North American balsam poplars (Populus trichocarpa Torr. & Gray and P. balsamifera L.; section Tacamahaca), and one Eurasian aspen (P. tremula L.; section Populus) were compared using nine loci involved in defense, stress response, photoperiodism, freezing tolerance, and housekeeping. N...

    journal_title:Journal of molecular evolution

    pub_type: 杂志文章

    doi:10.1007/s00239-012-9504-5

    authors: Ismail M,Soolanayakanahally RY,Ingvarsson PK,Guy RD,Jansson S,Silim SN,El-Kassaby YA

    更新日期:2012-06-01 00:00:00

  • Codon bias is a major factor explaining phage evolution in translationally biased hosts.

    abstract::The size and diversity of bacteriophage populations require methodologies to quantitatively study the landscape of phage differences. Statistical approaches are confronted with small genome sizes forbidding significant single-phage analysis, and comparative methods analyzing full phage genomes represent an alternative...

    journal_title:Journal of molecular evolution

    pub_type: 杂志文章

    doi:10.1007/s00239-008-9068-6

    authors: Carbone A

    更新日期:2008-03-01 00:00:00

  • Exceptional LINE density at V1R loci: the Lyon repeat hypothesis revisited on autosomes.

    abstract::The mammalian olfactory system utilizes three large receptor families: the olfactory receptors (ORs) of the main nose and the vomeronasal type-1 and type-2 receptor genes (V1Rs and V2Rs) of the vomeronasal organ. We find that these loci are among the most long interspersed nuclear element (LINE)-dense regions of mamma...

    journal_title:Journal of molecular evolution

    pub_type: 杂志文章

    doi:10.1007/s00239-008-9195-0

    authors: Kambere MB,Lane RP

    更新日期:2009-02-01 00:00:00

  • Molecular mechanisms for the variation of mitochondrial gene content and gene arrangement among chigger mites of the genus Leptotrombidium (Acari: Acariformes).

    abstract::The gene content of a mitochondrial (mt) genome, i.e., 37 genes and a large noncoding region (LNR), is usually conserved in Metazoa. The arrangement of these genes and the LNR is generally conserved at low taxonomic levels but varies substantially at high levels. We report here a variation in mt gene content and gene ...

    journal_title:Journal of molecular evolution

    pub_type: 杂志文章

    doi:10.1007/s00239-005-0196-y

    authors: Shao R,Barker SC,Mitani H,Takahashi M,Fukunaga M

    更新日期:2006-08-01 00:00:00

  • Selection conflicts, gene expression, and codon usage trends in yeast.

    abstract::Synonymous codon usage in yeast appears to be influenced by natural selection on gene expression, as well as regional variation in compositional bias. Because of the large number of potential targets of selection (i.e., most of the codons in the genome) and presumed small selection coefficients, codon usage is an exce...

    journal_title:Journal of molecular evolution

    pub_type: 杂志文章

    doi:10.1007/s00239-003-2459-9

    authors: Kliman RM,Irving N,Santiago M

    更新日期:2003-07-01 00:00:00

  • Genomic and phylogenetic analysis of the S100A7 (Psoriasin) gene duplications within the region of the S100 gene cluster on human chromosome 1q21.

    abstract::The human S100 gene family encodes the EF-hand superfamily of calcium-binding proteins, with at least 14 family members clustered relatively closely together on chromosome 1q21. We have analyzed the most recently available genomic sequence of the human S100 gene cluster for evidence of tandem gene duplications during ...

    journal_title:Journal of molecular evolution

    pub_type: 杂志文章

    doi:10.1007/s00239-002-2410-5

    authors: Kulski JK,Lim CP,Dunn DS,Bellgard M

    更新日期:2003-04-01 00:00:00

  • Expression pattern diversity and functional conservation between retroposed PRAT genes from Drosophila melanogaster and Drosophila virilis.

    abstract::Gene duplication by retrotransposition duplicates only the coding and untranslated regions of a gene and, thus, biases retroduplicated genes toward having different expression patterns from their parental genes. As such, genes duplicated by retrotransposition are more likely to develop novel expression domains. To exp...

    journal_title:Journal of molecular evolution

    pub_type: 杂志文章

    doi:10.1007/s00239-008-9098-0

    authors: Penney J,Bossé J,Clark DV

    更新日期:2008-05-01 00:00:00

  • The 3-Minihelix tRNA Evolution Theorem.

    abstract::Transfer RNA (tRNA) is the central intellectual property in the evolution of life on Earth. tRNA evolved from repeats and inverted repeats of known sequence. The anticodon and the T stem-loop-stems are homologs with significant conserved sequence identity. A number of models have been advanced to explain tRNA evolutio...

    journal_title:Journal of molecular evolution

    pub_type: 信件

    doi:10.1007/s00239-020-09928-2

    authors: Burton ZF

    更新日期:2020-04-01 00:00:00

  • Conserved organization of an avian histone gene cluster with inverted duplications of H3 and H4 genes.

    abstract::The organization of histone gene clusters of the duck Cairina moschata was studied in the DNA inserts of two recombinant phage that overlap and feature identical histone gene arrangements but differ in sequence details and in the extent of repetition of an AT-rich motif in one of the nontranscribed spacer regions. The...

    journal_title:Journal of molecular evolution

    pub_type: 杂志文章

    doi:10.1007/BF02102477

    authors: Tönjes R,Munk K,Doenecke D

    更新日期:1989-03-01 00:00:00

  • Phylogenetic distribution and evolutionary history of bacterial DEAD-Box proteins.

    abstract::DEAD-box proteins are found in all domains of life and participate in almost all cellular processes that involve RNA. The presence of DEAD and Helicase_C conserved domains distinguish these proteins. DEAD-box proteins exhibit RNA-dependent ATPase activity in vitro, and several also show RNA helicase activity. In this ...

    journal_title:Journal of molecular evolution

    pub_type: 杂志文章

    doi:10.1007/s00239-011-9441-8

    authors: López-Ramírez V,Alcaraz LD,Moreno-Hagelsieb G,Olmedo-Álvarez G

    更新日期:2011-04-01 00:00:00

  • The population genetics of the alpha-2 globin locus of orangutans (Pongo pygmaeus).

    abstract::In this study, the molecular population genetics of the orangutan's alpha-2 globin (HBA2) gene were investigated in order to test for the action of natural selection. Haplotypes from 28 orangutan chromosomes were collected from a 1.46-kilobase region of the alpha-2 globin locus. While many aspects of the data were con...

    journal_title:Journal of molecular evolution

    pub_type: 杂志文章

    doi:10.1007/s00239-004-0201-x

    authors: Steiper ME,Wolfe ND,Karesh WB,Kilbourn AM,Bosi EJ,Ruvolo M

    更新日期:2005-03-01 00:00:00

  • Evolutionary dynamics of the human endogenous retrovirus family HERV-K inferred from full-length proviral genomes.

    abstract::Several distinct families of endogenous retroviruses exist in the genomes of primates. Most of them are remnants of ancient germ-line infections. The human endogenous retrovirus family HERV-K represents the unique known case of endogenous retrovirus that amplified in the human genome after the divergence of human and ...

    journal_title:Journal of molecular evolution

    pub_type: 杂志文章

    doi:10.1007/s002390010213

    authors: Costas J

    更新日期:2001-09-01 00:00:00

  • Evolutionary rate and genetic heterogeneity of human T-cell lymphotropic virus type II (HTLV-II) using isolates from European injecting drug users.

    abstract::Seven new Italian and two new British HTLV-II isolates were obtained from injecting drug users and the entire long terminal repeat (LTR) region was sequenced. Restriction analysis showed that all the Italian isolates are of the IIb subtype, whereas the British isolates are of the IIa subtype. To understand whether the...

    journal_title:Journal of molecular evolution

    pub_type: 杂志文章

    doi:10.1007/pl00006340

    authors: Salemi M,Vandamme AM,Gradozzi C,Van Laethem K,Cattaneo E,Taylor G,Casoli C,Goubau P,Desmyter J,Bertazzoni U

    更新日期:1998-05-01 00:00:00

  • Organization and evolution of the mitochondrial DNA control region in the avian genus Alectoris.

    abstract::The entire mitochondrial DNA control region (mtDNA D-loop) was sequenced in the seven extant species of Alectoris partridges. The D-loop length is very conserved (1155 +/- 2 nucleotides), and substitution rates are lower than for the mitochondrial cytochrome b gene of the same species, on average. Comparative analyses...

    journal_title:Journal of molecular evolution

    pub_type: 杂志文章

    doi:10.1007/pl00006402

    authors: Randi E,Lucchini V

    更新日期:1998-10-01 00:00:00

  • Relationships between bacterial drug resistance pumps and other transport proteins.

    abstract::We have used three reference sequences representative of bacterial drug resistance pumps and sugar transport proteins to collect the 91 most closely related sequences from a composite, nonredundant protein sequence database. Having eliminated certain very close relatives, the remainder were subjected to analysis and a...

    journal_title:Journal of molecular evolution

    pub_type: 杂志文章

    doi:10.1007/BF02198855

    authors: Parish JH,Bentley J

    更新日期:1996-02-01 00:00:00

  • Functional constraints of 6-phosphogluconate dehydrogenase (6-PGD) based on sequence and structural information.

    abstract::The pentose phosphate cycle is considered as a major source of NADPH and pentose needed for nucleic acid biosynthesis. 6-Phosphogluconate dehydrogenase (6PGD), an enzyme participating in this cycle, catalyzes the oxidative decarboxylation of 6PGD to ribulose 5-phosphate with the subsequent release of CO2 and the reduc...

    journal_title:Journal of molecular evolution

    pub_type: 杂志文章

    doi:10.1007/s00239-004-2630-y

    authors: Goulielmos GN,Eliopoulos E,Loukas M,Tsakas S

    更新日期:2004-09-01 00:00:00

  • Novel hydrophobins from Trichoderma define a new hydrophobin subclass: protein properties, evolution, regulation and processing.

    abstract::Hydrophobins are small proteins, characterised by the presence of eight positionally conserved cysteine residues, and are present in all filamentous asco- and basidiomycetes. They are found on the outer surfaces of cell walls of hyphae and conidia, where they mediate interactions between the fungus and the environment...

    journal_title:Journal of molecular evolution

    pub_type: 杂志文章

    doi:10.1007/s00239-011-9438-3

    authors: Seidl-Seiboth V,Gruber S,Sezerman U,Schwecke T,Albayrak A,Neuhof T,von Döhren H,Baker SE,Kubicek CP

    更新日期:2011-04-01 00:00:00

  • Iterative character weighting based on mutation frequency: a new method for constructing phyletic trees.

    abstract::In this paper we present an iterative character weighting method for the construction of phyletic trees. An initial tree is used to calculate the character weights, which are the number of mutations normalized so that the possible range is corrected for. The weights obtained are used to adjust the tree; this process i...

    journal_title:Journal of molecular evolution

    pub_type: 杂志文章

    doi:10.1007/BF02101127

    authors: van Ooyen A,Hogeweg P

    更新日期:1990-10-01 00:00:00

  • Phylogeny and self-splicing ability of the plastid tRNA-Leu group I Intron.

    abstract::Group I introns are mobile RNA enzymes (ribozymes) that encode conserved primary and secondary structures required for autocatalysis. The group I intron that interrupts the tRNA-Leu gene in cyanobacteria and plastids is remarkable because it is the oldest known intervening sequence and may have been present in the com...

    journal_title:Journal of molecular evolution

    pub_type: 杂志文章

    doi:10.1007/s00239-003-2533-3

    authors: Simon D,Fewer D,Friedl T,Bhattacharya D

    更新日期:2003-12-01 00:00:00

  • Comparative study of translation termination sites and release factors (RF1 and RF2) in procaryotes.

    abstract::Translation termination is catalyzed by release factors that recognize stop codons. However, previous works have shown that in some bacteria, the termination process also involves bases around stop codons. Recently, Ito et al. analyzed release factors and identified the amino acids therein that recognize stop codons. ...

    journal_title:Journal of molecular evolution

    pub_type: 杂志文章

    doi:10.1007/s00239-002-2435-9

    authors: Ozawa Y,Saito R,Washio T,Tomita M

    更新日期:2003-06-01 00:00:00

  • The structure and gene repertoire of an ancient red algal plastid genome.

    abstract::Photosynthetic eukaryotes can, according to features of their chloroplasts, be divided into two major groups: the red and the green lineage of plastid evolution. To extend the knowledge about the evolution of the red lineage we have sequenced and analyzed the chloroplast genome (cp-genome) of Cyanidium caldarium RK1, ...

    journal_title:Journal of molecular evolution

    pub_type: 杂志文章

    doi:10.1007/s002390010101

    authors: Glöckner G,Rosenthal A,Valentin K

    更新日期:2000-10-01 00:00:00

  • Heteroplasmy suggests paternal co-transmission of multiple genomes and pervasive reversion of maternally into paternally transmitted genomes of mussel (Mytilus) mitochondrial DNA.

    abstract::Marine mussels of the genus Mytilus have two types of mitochondrial DNA with separate paternal and maternal inheritance. Females are homoplasmic for an F genome that is transmitted to all offspring, whereas males are heteroplasmic for this F genome and for a highly diverged (> 20%) M genome that is transmitted only to...

    journal_title:Journal of molecular evolution

    pub_type: 杂志文章

    doi:10.1007/s00239-003-0019-y

    authors: Quesada H,Stuckas H,Skibinski DO

    更新日期:2003-01-01 00:00:00

  • Duplication and diversification of the apolipoprotein CI (APOCI) genomic segment in association with retroelements.

    abstract::We have previously shown that several multicopy gene families within the major histocompatibility complex (MHC) arose from a process of segmental duplication. It has also been observed that retroelements play a role in generating diversity within these duplicated segments. The objective of this study was to compare th...

    journal_title:Journal of molecular evolution

    pub_type: 杂志文章

    doi:10.1007/s002399910042

    authors: Freitas EM,Gaudieri S,Zhang WJ,Kulski JK,van Bockxmeer FM,Christiansen FT,Dawkins RL

    更新日期:2000-04-01 00:00:00

  • Interaction of silent and replacement changes in eukaryotic coding sequences.

    abstract::We examined the codon usages in well-conserved and less-well-conserved regions of vertebrate protein genes and found them to be similar. Despite this similarity, there is a statistically significant decrease in codon bias in the less-well-conserved regions. Our analysis suggests that although those codon changes initi...

    journal_title:Journal of molecular evolution

    pub_type: 杂志文章

    doi:10.1007/BF02100090

    authors: Lipman DJ,Wilbur WJ

    更新日期:1984-01-01 00:00:00

  • The extension reached by the minimization of the polarity distances during the evolution of the genetic code.

    abstract::The level reached by the optimization of the polarity distances during the evolution of the genetic code was investigated. The results, although not conclusive, indicate that this optimization level is higher than the data reported in the literature. The results seem compatible with the reaching of an evolutionary min...

    journal_title:Journal of molecular evolution

    pub_type: 杂志文章

    doi:10.1007/BF02103616

    authors: Di Giulio M

    更新日期:1989-10-01 00:00:00

  • Divergent intron conservation in the mitochondrial nad2 gene: signatures for the three bryophyte classes (mosses, liverworts, and hornworts) and the lycophytes.

    abstract::The slow-evolving mitochondrial DNAs of plants have potentially conserved information on the phylogenetic branching of the earliest land plants. We present the nad2 gene structures in hornworts and liverworts and in the presumptive earliest-branching vascular land plant clade, the Lycopodiopsida. Taken together with t...

    journal_title:Journal of molecular evolution

    pub_type: 杂志文章

    doi:10.1007/s00239-002-2324-2

    authors: Pruchner D,Beckert S,Muhle H,Knoop V

    更新日期:2002-09-01 00:00:00

  • MgtC as a horizontally-acquired virulence factor of intracellular bacterial pathogens: evidence from molecular phylogeny and comparative genomics.

    abstract::MgtC is a virulence factor required for intramacrophage survival and growth in low Mg2+ medium in two pathogens that are not phylogenetically related, Salmonella typhimurium and Mycobacterium tuberculosis. In S. typhimurium, mgtC is carried by the SPI-3 pathogenicity island and hybridization studies have suggested tha...

    journal_title:Journal of molecular evolution

    pub_type: 信件

    doi:10.1007/s00239-003-2496-4

    authors: Blanc-Potard AB,Lafay B

    更新日期:2003-10-01 00:00:00

  • Evolution of the autosomal chorion cluster in Drosophila. IV. The Hawaiian Drosophila: rapid protein evolution and constancy in the rate of DNA divergence.

    abstract::Autosomal chorion genes s18, s15, and s19 are shown to diverge at extremely rapid rates in closely related taxa of Hawaiian Drosophila. Their nucleotide divergence rates are at least as fast as those of intergenic regions that are known to evolve more extensively between distantly related species. Their amino acid div...

    journal_title:Journal of molecular evolution

    pub_type: 杂志文章

    doi:10.1007/BF02106055

    authors: Martínez-Cruzado JC

    更新日期:1990-11-01 00:00:00

  • The rate of unequal crossing over in the dumpy gene from Drosophila melanogaster.

    abstract::The PIGSFEAST (PF) exon of the Drosophila dumpy gene is undergoing concerted evolution by the process of unequal crossing over. We have developed a long-range PCR-based assay to amplify the approximately 12 kb long exon which contains variable numbers of 303 or 306 nt long repeats in a tandem array. We applied this pr...

    journal_title:Journal of molecular evolution

    pub_type: 杂志文章

    doi:10.1007/s00239-010-9327-1

    authors: Carmon A,Larson M,Wayne M,MacIntyre R

    更新日期:2010-03-01 00:00:00