Abstract:
:Protection against inflammation and oxidative stress is key in slowing down aging processes. The honey bee (Apis mellifera) shows flexible aging patterns linked to the social role of individual bees. One molecular factor associated with honey bee aging regulation is vitellogenin, a lipoglycophosphoprotein with anti-inflammatory and antioxidant properties. Recently, we identified three genes in Hymenopteran genomes arisen from ancient insect vitellogenin duplications, named vg-like-A, -B, and -C. The function of these vitellogenin homologs is unclear. We hypothesize that some of them might share gene- and protein-level similarities and a longevity-supporting role with vitellogenin. Here, we show how the structure and modifications of the vg-like genes and proteins have diverged from vitellogenin. Furthermore, all three vg-like genes show signs of positive selection, but the spatial location of the selected protein sites differ from those found in vitellogenin. We show that all these genes are expressed in both long-lived winter worker bees and in summer nurse bees with intermediate life expectancy, yet only vg-like-A shows elevated expression in winter bees as found in vitellogenin. Finally, we show that vg-like-A responds more strongly than vitellogenin to inflammatory and oxidative conditions in summer nurse bees, and that also vg-like-B responds to oxidative stress. We associate vg-like-A and, to lesser extent, vg-like-B to the antiaging roles of vitellogenin, but that vg-like-C probably is involved in some other function. Our analysis indicates that an ancient duplication event facilitated the adaptive and functional divergence of vitellogenin and its paralogs in the honey bee.
journal_name
Genome Biol Evoljournal_title
Genome biology and evolutionauthors
Salmela H,Stark T,Stucki D,Fuchs S,Freitak D,Dey A,Kent CF,Zayed A,Dhaygude K,Hokkanen H,Sundström Ldoi
10.1093/gbe/evw014subject
Has Abstractpub_date
2016-03-09 00:00:00pages
495-506issue
3issn
1759-6653pii
evw014journal_volume
8pub_type
杂志文章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
pub_type: 杂志文章
doi:10.1093/gbe/evu268
更新日期:2014-12-19 00:00:00
abstract::OAS (2'-5'-oligoadenylate synthases) proteins and cyclic GMP-AMP synthase (cGAS, gene symbol: MB21D1) patrol the cytoplasm for the presence of foreign nucleic acids. Upon binding to double-stranded RNA or double-stranded DNA, OAS proteins and cGAS produce nucleotide second messengers to activate RNase L and STING (sti...
journal_title:Genome biology and evolution
pub_type: 杂志文章
doi:10.1093/gbe/evv046
更新日期:2015-03-09 00:00:00
abstract::Arsenic is widespread in the environment and its presence is a result of natural or anthropogenic activities. Microbes have developed different mechanisms to deal with toxic compounds such as arsenic and this is to resist or metabolize the compound. Here, we present the first reference set of genomic, transcriptomic a...
journal_title:Genome biology and evolution
pub_type: 杂志文章
doi:10.1093/gbe/evt061
更新日期:2013-01-01 00:00:00
abstract::Chagas disease was described by Carlos Chagas, who first identified the parasite Trypanosoma cruzi from a 2-year-old girl called Berenice. Many T. cruzi sequencing projects based on short reads have demonstrated that genome assembly and downstream comparative analyses are extremely challenging in this species, given t...
journal_title:Genome biology and evolution
pub_type: 杂志文章
doi:10.1093/gbe/evz129
更新日期:2019-07-01 00:00:00
abstract::Geosmithia morbida is an emerging fungal pathogen which serves as a model for examining the evolutionary processes behind pathogenicity because it is one of two known pathogens within a genus of mostly saprophytic, beetle-associated, fungi. This pathogen causes thousand cankers disease in black walnut trees and is vec...
journal_title:Genome biology and evolution
pub_type: 杂志文章
doi:10.1093/gbe/evx242
更新日期:2017-12-01 00:00:00
abstract::Chaperonins promote protein folding and are known to play a role in the maintenance of cellular stability under stress conditions. The group I bacterial chaperonin complex comprises GroEL, that forms a barrel-like oligomer, and GroES that forms the lid. In most eubacteria the GroES/GroEL chaperonin is encoded by a sin...
journal_title:Genome biology and evolution
pub_type: 杂志文章
doi:10.1093/gbe/evw287
更新日期:2017-01-01 00:00:00
abstract::A major mode of gene expression evolution is based on changes in cis-regulatory elements (CREs) whose function critically depends on the presence of transcription factor-binding sites (TFBS). Because CREs experience extensive TFBS turnover even with conserved function, alignment-based studies of CRE sequence evolution...
journal_title:Genome biology and evolution
pub_type: 杂志文章
doi:10.1093/gbe/evp010
更新日期:2009-05-25 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
pub_type: 杂志文章
doi:10.1093/gbe/evw277
更新日期:2016-12-01 00:00:00
abstract::The genus Claviceps has been known for centuries as an economically important fungal genera for pharmacology and agricultural research. Only recently have researchers begun to unravel the evolutionary history of the genus, with origins in South America and classification of four distinct sections through ecological, m...
journal_title:Genome biology and evolution
pub_type: 杂志文章
doi:10.1093/gbe/evaa267
更新日期:2021-01-29 00:00:00
abstract::The Arabidopsis DA1 genes appear to have multiple functions in regulating organ size and abiotic stress response, but the biological roles of its closely related genes remain unknown. Evolutionary analyses might provide some clues to aid in an understanding of their functional diversification. In this work, we charact...
journal_title:Genome biology and evolution
pub_type: 杂志文章
doi:10.1093/gbe/evu076
更新日期:2014-04-01 00:00:00
abstract::The Piwi-interacting RNA (piRNA) pathway is responsible for germline specification, gametogenesis, transposon silencing, and genome integrity. Transposable elements can disrupt genome and its functions. However, piRNA pathway evolution and its adaptation to transposon diversity in the teleost fish remain unknown. This...
journal_title:Genome biology and evolution
pub_type: 杂志文章
doi:10.1093/gbe/evu105
更新日期:2014-05-19 00:00:00
abstract::It is often unavoidable to combine data from different sequencing centers or sequencing platforms when compiling data sets with a large number of individuals. However, the different data are likely to contain specific systematic errors that will appear as SNPs. Here, we devise a method to detect systematic errors in c...
journal_title:Genome biology and evolution
pub_type: 杂志文章
doi:10.1093/gbe/evy199
更新日期:2018-10-01 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
pub_type: 杂志文章
doi:10.1093/gbe/evv219
更新日期:2015-11-11 00:00:00
abstract::To fulfill their physiological functions, bile acids are conjugated with amino acids. In humans, conjugation is catalyzed by bile acid coenzyme A: amino acid N-acyltransferase (BAAT), an enzyme with a highly conserved catalytic triad in its active site. Interestingly, the conjugated amino acids are highly variable amo...
journal_title:Genome biology and evolution
pub_type: 杂志文章
doi:10.1093/gbe/evz238
更新日期:2019-11-01 00:00:00
abstract::The iconic Australasian kangaroos and wallabies represent a successful marsupial radiation. However, the evolutionary relationship within the two genera, Macropus and Wallabia, is controversial: mitochondrial and nuclear genes, and morphological data have produced conflicting scenarios regarding the phylogenetic relat...
journal_title:Genome biology and evolution
pub_type: 杂志文章
doi:10.1093/gbe/evx245
更新日期:2018-01-01 00:00:00
abstract::Sex determination evolves rapidly, often because of turnover of the genes at the top of the pathway. The house fly, Musca domestica, has a multifactorial sex determination system, allowing us to identify the selective forces responsible for the evolutionary turnover of sex determination in action. There is a male dete...
journal_title:Genome biology and evolution
pub_type: 杂志文章
doi:10.1093/gbe/evv128
更新日期:2015-07-02 00:00:00
abstract::Gene duplication may be an important mechanism for the evolution of new functions and for the adaptive modulation of gene expression via dosage effects. Here, we analyzed the fate of gene duplicates for two strains of a novel group of cyanobacteria (genus Acaryochloris) that produces the far-red light absorbing chloro...
journal_title:Genome biology and evolution
pub_type: 杂志文章
doi:10.1093/gbe/evr060
更新日期:2011-01-01 00:00:00
abstract::The question on the patterns and limits of reduction of plastid genomes in nonphotosynthetic plants and the reasons of their conservation is one of the intriguing topics in plant genome evolution. Here, we report sequencing and analysis of plastid genome in nonphotosynthetic orchids Epipogium aphyllum and Epipogium ro...
journal_title:Genome biology and evolution
pub_type: 杂志文章
doi:10.1093/gbe/evv019
更新日期:2015-01-28 00:00:00
abstract::Sex chromosomes contribute substantially to key evolutionary processes such as speciation and adaptation. Several theories suggest that evolution could occur more rapidly on sex chromosomes, but currently our understanding of whether and how this occurs is limited. Here, we present an analysis of the great tit (Parus ...
journal_title:Genome biology and evolution
pub_type: 杂志文章
doi:10.1093/gbe/evaa044
更新日期:2020-03-01 00:00:00
abstract::The ability to obtain genome-wide sequences of very large numbers of individuals from natural populations raises questions about optimal sampling designs and the limits to extracting information on key population-genetic parameters from temporal-survey data. Methods are introduced for evaluating whether observed tempo...
journal_title:Genome biology and evolution
pub_type: 杂志文章
doi:10.1093/gbe/evaa056
更新日期:2020-04-01 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
pub_type: 杂志文章
doi:10.1093/gbe/evy177
更新日期:2018-09-01 00:00:00
abstract::Positive selection and purifying selection reduce levels of variation at linked neutral loci. One consequence of these processes is that the amount of neutral diversity and the meiotic recombination rate are predicted to be positively correlated across the genome-a prediction met in some species but not others. To bet...
journal_title:Genome biology and evolution
pub_type: 信件
doi:10.1093/gbe/evaa045
更新日期:2020-04-01 00:00:00
abstract::Olfactory receptors (ORs) are membrane proteins that mediate the detection of odorants in the environment, and are the largest vertebrate gene family. Comparative studies of mammalian genomes indicate that OR repertoires vary widely, even between closely related lineages, as a consequence of frequent OR gains and loss...
journal_title:Genome biology and evolution
pub_type: 杂志文章
doi:10.1093/gbe/evw013
更新日期:2016-02-09 00:00:00
abstract::The posttranslational modification of proteins by the ubiquitination pathway is an important regulatory mechanism in eukaryotes. To date, however, studies on the evolutionary history of the proteins involved in this pathway have been restricted to E1 and E2 enzymes, whereas E3 studies have been focused mainly in metaz...
journal_title:Genome biology and evolution
pub_type: 杂志文章
doi:10.1093/gbe/evt052
更新日期:2013-01-01 00:00:00
abstract::Each animal microRNA (miRNA) targets many genes for repression. Down-regulation of most of these targets is weak and has no detectable individual phenotypic effect. Whether this extensive weak repression is biologically relevant is a central issue in the debate on miRNA functionality. In the "small (target) pool" view...
journal_title:Genome biology and evolution
pub_type: 杂志文章
doi:10.1093/gbe/evy079
更新日期:2018-04-01 00:00:00
abstract::The conjugative virulence plasmid is a key component of the Rhodococcus equi accessory genome essential for pathogenesis. Three host-associated virulence plasmid types have been identified the equine pVAPA and porcine pVAPB circular variants, and the linear pVAPN found in bovine (ruminant) isolates. We recently charac...
journal_title:Genome biology and evolution
pub_type: 杂志文章
doi:10.1093/gbe/evx057
更新日期:2017-05-01 00:00:00
abstract::By comparing the patterns of evolution in the coding and upstream noncoding regions of yeast ribosomal protein (RP) genes duplicated in a genome duplication, we find that although nonsynonymous sites in the coding sequences show strong evidence for the fixation of recent gene conversion events, similar patterns are le...
journal_title:Genome biology and evolution
pub_type: 杂志文章
doi:10.1093/gbe/evq067
更新日期:2010-01-01 00:00:00
abstract::Chlamydiae are an example of obligate intracellular bacteria that possess highly reduced, compact genomes (1.0-3.5 Mbp), reflective of their abilities to sequester many essential nutrients from the host that they no longer need to synthesize themselves. The Chlamydiae is a phylum with a very wide host range spanning m...
journal_title:Genome biology and evolution
pub_type: 杂志文章
doi:10.1093/gbe/evy195
更新日期:2018-10-01 00:00:00
abstract::Rapid divergence of gene copies after duplication is thought to determine the fate of the copies and evolution of novel protein functions. However, data on how long the gene copies continue to experience an elevated rate of evolution remain scarce. Standard theory of gene duplications based on some level of genetic re...
journal_title:Genome biology and evolution
pub_type: 杂志文章
doi:10.1093/gbe/evu159
更新日期:2014-07-28 00:00:00
abstract::Short interspersed elements (SINEs) are non-autonomous retrotransposons. Although they usually show fast evolutionary rates, in some instances highly conserved domains (HCDs) have been observed in elements with otherwise divergent sequences and from distantly related species. Here, we document the life history of two ...
journal_title:Genome biology and evolution
pub_type: 杂志文章
doi:10.1093/gbe/evx094
更新日期:2017-06-01 00:00:00