Nephromyces Encodes a Urate Metabolism Pathway and Predicted Peroxisomes, Demonstrating That These Are Not Ancient Losses of Apicomplexans.

abstract：:Whole-genome duplications are radical evolutionary events that have driven speciation and adaptation in many taxa. Higher-order polyploids have complex histories often including interspecific hybridization and dynamic genomic changes. This chromosomal reshuffling is poorly understood for most polyploid species, despit...

journal_title：Genome biology and evolution

authors： Tennessen JA,Govindarajulu R,Ashman TL,Liston A

更新日期：2014-12-04 00:00:00

abstract：:The presence of spliceosomal introns in eukaryotic genes poses a major puzzle for the study of genome evolution. Intron densities vary enormously among distant lineages. However, the mechanisms driving intron gains are poorly understood and very few intron gains and losses have been documented over short evolutionary ...

journal_title：Genome biology and evolution

authors： Croll D,McDonald BA

更新日期：2012-01-01 00:00:00

abstract：:Parasites are sometimes able to manipulate the behavior of their hosts. However, the molecular cues underlying this phenomenon are poorly documented. We previously reported that the parasitoid wasp Leptopilina boulardi which develops from Drosophila larvae is often infected by an inherited DNA virus. In addition to be...

journal_title：Genome biology and evolution

authors： Lepetit D,Gillet B,Hughes S,Kraaijeveld K,Varaldi J

更新日期：2016-12-01 00:00:00

abstract：:Nematodes are highly abundant animals with diverse habitats and lifestyles. Some are free living whereas others parasitize animals or plants, and among the latter, infection abilities change across developmental stages to infect hosts and complete life cycles. To determine the relationship between transcriptome evolut...

journal_title：Genome biology and evolution

authors： Lu MR,Lai CK,Liao BY,Tsai IJ

更新日期：2020-07-01 00:00:00

abstract：:RNA editing occurs in the organellar mRNAs of all land plants but the marchantioid liverworts, making liverworts a perfect group for studying the evolution of RNA editing. Here, we profiled the RNA editing of 42 exemplars spanning the ordinal phylogenetic diversity of liverworts, and screened for the nuclear-encoded p...

journal_title：Genome biology and evolution

authors： Dong S,Zhao C,Zhang S,Wu H,Mu W,Wei T,Li N,Wan T,Liu H,Cui J,Zhu R,Goffinet B,Liu Y

更新日期：2019-11-01 00:00:00

abstract：:Mitochondrial (mt) genomes are intensively studied in Ascomycota and Basidiomycota, but they are poorly documented in basal fungal lineages. In this study, we sequenced the complete mtDNA of Rhizophagus sp. DAOM 213198, a close relative to Rhizophagus irregularis, a widespread, ecologically and economical relevant spe...

journal_title：Genome biology and evolution

authors： Nadimi M,Stefani FO,Hijri M

更新日期：2014-12-19 00:00:00

abstract：:Discoba (Excavata) is an evolutionarily important group of eukaryotes that includes Jakobida, with the most bacterial-like mitochondrial genomes known, and Euglenozoa, many of which have extensively fragmented mitochondrial genomes. However, little is known about the mitochondrial genomes of Heterolobosea, the third m...

journal_title：Genome biology and evolution

authors： Yang J,Harding T,Kamikawa R,Simpson AGB,Roger AJ

更新日期：2017-05-01 00:00:00

abstract：:Hemerythrins and hemocyanins are respiratory proteins present in some of the most ecologically diverse animal lineages; however, the precise evolutionary history of their enzymatic domains (hemerythrin, hemocyanin M, and tyrosinase) is still not well understood. We survey a wide dataset of prokaryote and eukaryote gen...

journal_title：Genome biology and evolution

authors： Martín-Durán JM,de Mendoza A,Sebé-Pedrós A,Ruiz-Trillo I,Hejnol A

更新日期：2013-01-01 00:00:00

abstract：:Rieske/cytochrome b (Rieske/cytb) complexes are proton pumping quinol oxidases that are present in most bacteria and Archaea. The phylogeny of their subunits follows closely the 16S-rRNA phylogeny, indicating that chemiosmotic coupling was already present in the last universal common ancestor of Archaea and bacteria. ...

journal_title：Genome biology and evolution

authors： Baymann F,Schoepp-Cothenet B,Lebrun E,van Lis R,Nitschke W

更新日期：2012-01-01 00:00:00

abstract：:The genus Halomonas possesses bacteria that are halophilic or halotolerant and exhibit a wide range of pH tolerance. The genome of Halomonas sp. Soap Lake #7 was sequenced to provide a better understanding of the mechanisms for salt and pH tolerance in this genus. The bacterium's genome was found to possess two comple...

journal_title：Genome biology and evolution

authors： Mormile MR,Edwards T,Frank R,Geurin Z,Haendiges J,Hoffmann M,Miller J

更新日期：2019-06-01 00:00:00

abstract：:Plastid genomes are an invaluable resource for plant biological studies. However, the number of completely sequenced plant plastid genomes is still small compared with the vast number of species. To provide an alternative generalized approach, we designed a set of 138 pairs of universal primers for amplifying (termed ...

journal_title：Genome biology and evolution

authors： Dong W,Xu C,Cheng T,Lin K,Zhou S

更新日期：2013-01-01 00:00:00

abstract：:Because of its highly repetitive nature, the human male-specific Y chromosome remains understudied. It is important to investigate variation on the Y chromosome to understand its evolution and contribution to phenotypic variation, including infertility. Approximately 20% of the human Y chromosome consists of ampliconi...

journal_title：Genome biology and evolution

authors： Ye D,Zaidi AA,Tomaszkiewicz M,Anthony K,Liebowitz C,DeGiorgio M,Shriver MD,Makova KD

更新日期：2018-05-01 00:00:00

abstract：:The oldest contemporary human mitochondrial lineages arose in Africa. The earliest divergent extant maternal offshoot, namely haplogroup L0d, is represented by click-speaking forager peoples of southern Africa. Broadly defined as Khoesan, contemporary Khoesan are today largely restricted to the semidesert regions of N...

journal_title：Genome biology and evolution

authors： Morris AG,Heinze A,Chan EK,Smith AB,Hayes VM

更新日期：2014-09-10 00:00:00

abstract：:Adaptive prediction is a capability of diverse organisms, including microbes, to sense a cue and prepare in advance to deal with a future environmental challenge. Here, we investigated the timeframe over which adaptive prediction emerges when an organism encounters an environment with novel structure. We subjected yea...

journal_title：Genome biology and evolution

authors： López García de Lomana A,Kaur A,Turkarslan S,Beer KD,Mast FD,Smith JJ,Aitchison JD,Baliga NS

更新日期：2017-06-01 00:00:00

abstract：:Although heterokaryons have been reported in nature, multicellular organisms are generally assumed genetically homogeneous. Here, we investigate the case of arbuscular mycorrhizal fungi (AMF) that form symbiosis with plant roots. The growth advantages they confer to their hosts are of great potential benefit to sustai...

journal_title：Genome biology and evolution

authors： Boon E,Halary S,Bapteste E,Hijri M

更新日期：2015-01-07 00:00:00

abstract：:Lateral gene transfer (LGT) is an important factor contributing to the evolution of prokaryotic genomes. The Aquificae are a hyperthermophilic bacterial group whose genes show affiliations to many other lineages, including the hyperthermophilic Thermotogae, the Proteobacteria, and the Archaea. Previous phylogenomic an...

journal_title：Genome biology and evolution

authors： Eveleigh RJ,Meehan CJ,Archibald JM,Beiko RG

更新日期：2013-01-01 00:00:00

abstract：:SHORT VEGETATIVE PHASE (SVP) genes are members of the well-known MADS-box gene family that regulates vital developmental processes in plants. In Arabidopsis, there are two SVP paralogs, SVP/AGAMOUS-LIKE22 (SVP/AGL22) and AGL24. SVP protein suppresses the flowering process, whereas AGL24 acts as a flowering activator. ...

journal_title：Genome biology and evolution

authors： Liu X,Sun Z,Dong W,Wang Z,Zhang L

更新日期：2018-11-01 00:00:00

abstract：:Sex chromosomes have evolved independently in many different taxa, and so have mechanisms to compensate for expression differences on sex chromosomes in males and females. Different clades have evolved vastly different ways to achieve dosage compensation, including hypertranscription of the single X in male Drosophila...

journal_title：Genome biology and evolution

authors： Mahajan S,Bachtrog D

更新日期：2015-01-18 00:00:00

abstract：:Taeniid cestodes (including the human parasites Echinococcus spp. and Taenia solium) have very few mobile genetic elements (MGEs) in their genome, despite lacking a canonical PIWI pathway. The MGEs of these parasites are virtually unexplored, and nothing is known about their expression and silencing. In this work, we ...

journal_title：Genome biology and evolution

authors： Koziol U,Radio S,Smircich P,Zarowiecki M,Fernández C,Brehm K

更新日期：2015-07-01 00:00:00

abstract：:Corals belong to the most basal class of the Phylum Cnidaria, which is considered the sister group of bilaterian animals, and thus have become an emerging model to study the evolution of developmental mechanisms. Although cell renewal, differentiation, and maintenance of pluripotency are cellular events shared by mult...

journal_title：Genome biology and evolution

authors： Reyes-Bermudez A,Villar-Briones A,Ramirez-Portilla C,Hidaka M,Mikheyev AS

更新日期：2016-03-23 00:00:00

abstract：:The identification of conserved syntenic regions enables discovery of predicted locations for orthologous and homeologous genes, even when no such gene is present. This capability means that synteny-based methods are far more effective than sequence similarity-based methods in identifying true-negatives, a necessity f...

journal_title：Genome biology and evolution

authors： Tang H,Bomhoff MD,Briones E,Zhang L,Schnable JC,Lyons E

更新日期：2015-11-11 00:00:00

abstract：:Chlorarachniophytes are unicellular marine algae with plastids (chloroplasts) of secondary endosymbiotic origin. Chlorarachniophyte cells retain the remnant nucleus (nucleomorph) and cytoplasm (periplastidial compartment, PPC) of the green algal endosymbiont from which their plastid was derived. To characterize the di...

journal_title：Genome biology and evolution

authors： Hopkins JF,Spencer DF,Laboissiere S,Neilson JA,Eveleigh RJ,Durnford DG,Gray MW,Archibald JM

更新日期：2012-01-01 00:00:00

abstract：:Acquisition of Elizabethkingia infections in intensive care units (ICUs) has risen in the past decade. Treatment of Elizabethkingia infections is challenging due to the lack of effective therapeutic regimens, leading to a high mortality rate. Elizabethkingia infections have long been attributed to Elizabethkingia meni...

journal_title：Genome biology and evolution

authors： Teo J,Tan SY,Liu Y,Tay M,Ding Y,Li Y,Kjelleberg S,Givskov M,Lin RT,Yang L

更新日期：2014-05-06 00:00:00

abstract：:Developmental constraints on genome evolution have been suggested to follow either an early conservation model or an "hourglass" model. Both models agree that late development strongly diverges between species, but debate on which developmental period is the most conserved. Here, based on a modified "Transcriptome Age...

journal_title：Genome biology and evolution

authors： Liu J,Robinson-Rechavi M

更新日期：2018-09-01 00:00:00

abstract：:Gene duplication is the primary source of new genes, but the mechanisms underlying the functional divergence and retention of duplicate genes are not well understood. Because eukaryotic proteins are localized to subcellular structures and localization can be altered by a single amino acid replacement, it was recently ...

journal_title：Genome biology and evolution

authors： Qian W,Zhang J

更新日期：2009-07-22 00:00:00

abstract：:Glycosaminoglycans are sulfated polysaccharide molecules, essential for many biological processes. The 6-O sulfation of glycosaminoglycans is carried out by carbohydrate 6-O sulfotransferases (C6OSTs), previously named Gal/GalNAc/GlcNAc 6-O sulfotransferases. Here, for the first time, we present a detailed phylogeneti...

journal_title：Genome biology and evolution

authors： Ocampo Daza D,Haitina T

更新日期：2020-07-01 00:00:00

abstract：:The selective pressures acting on viruses that replicate under enhanced mutation rates are largely unknown. Here, we describe resistance of foot-and-mouth disease virus to the mutagen 5-fluorouracil (FU) through a single polymerase substitution that prevents an excess of A to G and U to C transitions evoked by FU on t...

journal_title：Genome biology and evolution

authors： de la Higuera I,Ferrer-Orta C,de Ávila AI,Perales C,Sierra M,Singh K,Sarafianos SG,Dehouck Y,Bastolla U,Verdaguer N,Domingo E

更新日期：2017-05-01 00:00:00

abstract：:Bartonella is a genetically diverse group of vector-borne bacteria. Over 40 species have been characterized to date, mainly from mammalian reservoirs and arthropod vectors. Rodent reservoirs harbor one of the largest Bartonella diversity described to date, and novel species and genetic variants are continuously identi...

journal_title：Genome biology and evolution

authors： Gutiérrez R,Markus B,Carstens Marques de Sousa K,Marcos-Hadad E,Mugasimangalam RC,Nachum-Biala Y,Hawlena H,Covo S,Harrus S

更新日期：2018-11-01 00:00:00

abstract：:Amoebae have been considered as a genetic "melting pot" for its symbionts, facilitating genetic exchanges of the bacteria that co-inhabit the same host. To test the "melting pot" hypothesis, we analyzed six genomes of amoeba endosymbionts within Rickettsiales, four of which belong to Holosporaceae family and two to Ca...

journal_title：Genome biology and evolution

authors： Wang Z,Wu M

更新日期：2017-11-01 00:00:00

abstract：:Establishment of multicellularity represents a major transition in eukaryote evolution. A subgroup of Amoebozoa, the dictyosteliids, has evolved a relatively simple aggregative multicellular stage resulting in a fruiting body supported by a stalk. Protosteloid amoeba, which are scattered throughout the amoebozoan tree...

journal_title：Genome biology and evolution

authors： Hillmann F,Forbes G,Novohradská S,Ferling I,Riege K,Groth M,Westermann M,Marz M,Spaller T,Winckler T,Schaap P,Glöckner G

更新日期：2018-02-01 00:00:00