scholarly journals Clandestinovirus: A Giant Virus With Chromatin Proteins and a Potential to Manipulate the Cell Cycle of Its Host Vermamoeba vermiformis

2021 ◽  
Vol 12 ◽  
Author(s):  
Clara Rolland ◽  
Julien Andreani ◽  
Dehia Sahmi-Bounsiar ◽  
Mart Krupovic ◽  
Bernard La Scola ◽  
...  
Keyword(s):  
Cell Cycle ◽  
Mitochondrial Protein ◽  
Size Variation ◽  
Giant Virus ◽  
Genome Size Variation ◽  
Virus Propagation ◽  
Dna Viruses ◽  
Virus Family ◽  
Vermamoeba Vermiformis ◽  
Functional Features

For several decades, the vast world of DNA viruses has been expanding constantly. Various discoveries in this field have broadened our knowledge and revealed that DNA viruses encode many functional features, which were once thought to be exclusive to cellular life. Here, we report the isolation of a giant virus named “clandestinovirus,” grown on the amoebal host Vermamoeba vermiformis. This virus was discovered in a mixed co-culture associated with another giant virus, Faustovirus ST1. Clandestinovirus possesses a linear dsDNA genome of 581,987 base pairs containing 617 genes. Phylogenetically, clandestinovirus is most closely related to Acanthamoeba castellanii medusavirus and was considered a member of the proposed Medusaviridae family. However, clandestinovirus genome is 65% larger than that of medusavirus, emphasizing the considerable genome size variation within this virus family. Functional annotation of the clandestinovirus genes suggests that the virus encodes four core histones. Furthermore, clandestinovirus appears to orchestrate the cell cycle and mitochondrial activities of the infected host by virtue of encoding a panel of protein kinases and phosphatases, and a suite of functionally diverse mitochondrial protein homologs, respectively. Collectively, these observations illuminate a strategy employed by clandestinovirus to optimize the intracellular environment for efficient virus propagation.

Documenting Intraspecfic Genome Size Variation in Soybean

Crop Science ◽  
2004 ◽  
Vol 44 (1) ◽  
pp. 261 ◽  
Author(s):  
A. Lane Rayburn ◽  
D. P. Biradar ◽  
R. L. Nelson ◽  
R. McCloskey ◽  
K. M. Yeater
Keyword(s):  
Genome Size ◽  
Size Variation ◽  
Genome Size Variation

scholarly journals Genome size variation in deep-sea amphipods

2017 ◽  
Vol 4 (9) ◽  
pp. 170862 ◽  
Author(s):  
H. Ritchie ◽  
A. J. Jamieson ◽  
S. B. Piertney
Keyword(s):  
Life History ◽  
Genome Size ◽  
Deep Sea ◽  
Research Effort ◽  
Life History Strategy ◽  
Size Variation ◽  
Genome Size Variation ◽  
New Hebrides ◽  
Contrast Analysis ◽  
Independent Contrast

Genome size varies considerably across taxa, and extensive research effort has gone into understanding whether variation can be explained by differences in key ecological and life-history traits among species. The extreme environmental conditions that characterize the deep sea have been hypothesized to promote large genome sizes in eukaryotes. Here we test this supposition by examining genome sizes among 13 species of deep-sea amphipods from the Mariana, Kermadec and New Hebrides trenches. Genome sizes were estimated using flow cytometry and found to vary nine-fold, ranging from 4.06 pg (4.04 Gb) in Paralicella caperesca to 34.79 pg (34.02 Gb) in Alicella gigantea . Phylogenetic independent contrast analysis identified a relationship between genome size and maximum body size, though this was largely driven by those species that display size gigantism. There was a distinct shift in the genome size trait diversification rate in the supergiant amphipod A. gigantea relative to the rest of the group. The variation in genome size observed is striking and argues against genome size being driven by a common evolutionary history, ecological niche and life-history strategy in deep-sea amphipods.

scholarly journals Patterns of genome size variation in snapping shrimp

Genome ◽  
2016 ◽  
Vol 59 (6) ◽  
pp. 393-402 ◽  
Author(s):  
Nicholas W. Jeffery ◽  
Kristin Hultgren ◽  
Solomon Tin Chi Chak ◽  
T. Ryan Gregory ◽  
Dustin R. Rubenstein
Keyword(s):  
Genome Size ◽  
Phylogenetic Signal ◽  
Size Variation ◽  
Diverse Group ◽  
Chromosome Size ◽  
Genome Size Variation ◽  
Large Genome ◽  
Large Genome Size ◽  
Single Genus ◽  
Geographic Regions

Although crustaceans vary extensively in genome size, little is known about how genome size may affect the ecology and evolution of species in this diverse group, in part due to the lack of large genome size datasets. Here we investigate interspecific, intraspecific, and intracolony variation in genome size in 39 species of Synalpheus shrimps, representing one of the largest genome size datasets for a single genus within crustaceans. We find that genome size ranges approximately 4-fold across Synalpheus with little phylogenetic signal, and is not related to body size. In a subset of these species, genome size is related to chromosome size, but not to chromosome number, suggesting that despite large genomes, these species are not polyploid. Interestingly, there appears to be 35% intraspecific genome size variation in Synalpheus idios among geographic regions, and up to 30% variation in Synalpheus duffyi genome size within the same colony.

scholarly journals Genome size variation in gymnosperms under different growth conditions

Caryologia ◽  
2015 ◽  
Vol 68 (2) ◽  
pp. 92-96 ◽  
Author(s):  
Oriane Hidalgo ◽  
Joan Vallès ◽  
Angel Romo ◽  
Miguel-Ángel Canela ◽  
Teresa Garnatje
Keyword(s):  
Genome Size ◽  
Size Variation ◽  
Growth Conditions ◽  
Genome Size Variation

Nuclear genome size variation in fleshy-fruited Neotropical Myrtaceae

2008 ◽  
Vol 276 (3-4) ◽  
pp. 209-217 ◽  
Author(s):  
Itayguara Ribeiro da Costa ◽  
Marcelo Carnier Dornelas ◽  
Eliana Regina Forni-Martins
Keyword(s):  
Genome Size ◽  
Size Variation ◽  
Nuclear Genome ◽  
Genome Size Variation

scholarly journals Comparative analysis reveals within-population genome size variation in a rotifer is driven by large genomic elements with highly abundant satellite DNA repeat elements

BMC Biology ◽  
2021 ◽  
Vol 19 (1) ◽  
Author(s):  
C. P. Stelzer ◽  
J. Blommaert ◽  
A. M. Waldvogel ◽  
M. Pichler ◽  
B. Hecox-Lea ◽  
...  
Keyword(s):  
Genome Size ◽  
Satellite Dna ◽  
Gc Content ◽  
Size Variation ◽  
Isolated Populations ◽  
Genome Size Variation ◽  
Variable Regions ◽  
Geographic Population ◽  
Genome Size Evolution ◽  
Size Evolution

Abstract Background Eukaryotic genomes are known to display an enormous variation in size, but the evolutionary causes of this phenomenon are still poorly understood. To obtain mechanistic insights into such variation, previous studies have often employed comparative genomics approaches involving closely related species or geographically isolated populations within a species. Genome comparisons among individuals of the same population remained so far understudied—despite their great potential in providing a microevolutionary perspective to genome size evolution. The rotifer Brachionus asplanchnoidis represents one of the most extreme cases of within-population genome size variation among eukaryotes, displaying almost twofold variation within a geographic population. Results Here, we used a whole-genome sequencing approach to identify the underlying DNA sequence differences by assembling a high-quality reference genome draft for one individual of the population and aligning short reads of 15 individuals from the same geographic population including the reference individual. We identified several large, contiguous copy number variable regions (CNVs), up to megabases in size, which exhibited striking coverage differences among individuals, and whose coverage overall scaled with genome size. CNVs were of remarkably low complexity, being mainly composed of tandemly repeated satellite DNA with only a few interspersed genes or other sequences, and were characterized by a significantly elevated GC-content. CNV patterns in offspring of two parents with divergent genome size and CNV patterns in several individuals from an inbred line differing in genome size demonstrated inheritance and accumulation of CNVs across generations. Conclusions By identifying the exact genomic elements that cause within-population genome size variation, our study paves the way for studying genome size evolution in contemporary populations rather than inferring patterns and processes a posteriori from species comparisons.

scholarly journals Miscanthus: Inter- and Intraspecific Genome Size Variation Among M. × Giganteus, M. Sinensis, M. Sacchariflorus Accessions

2015 ◽  
Vol 57 (1) ◽  
pp. 104-113
Author(s):  
Sandra Cichorz ◽  
Maria Gośka ◽  
Monika Rewers
Keyword(s):  
Genome Size ◽  
Dna Content ◽  
Nuclear Dna ◽  
Size Variation ◽  
Nuclear Dna Content ◽  
Interspecific Variation ◽  
Genome Size Variation ◽  
2C Dna Content ◽  
Cytological Characteristics ◽  
Stomatal Length

AbstractSinceM. sinensisAnderss.,M. sacchariflorus(Maxim.) Hack. andM. ×giganteusJ.M.Greef & Deuter ex Hodk. and Renvoize have considerably the highest potential for biomass production amongMiscanthusAnderss. species, there is an urgent need to broaden the knowledge about cytological characteristics required for their improvement. In this study our objectives were to assess the genome size variation among eighteenMiscanthusaccessions, as well as estimation of the monoploid genome size (2C and Cx) of theM. sinensiscultivars, which have not been analyzed yet. The characterization of threeMiscanthusspecies was performed with the use of flow cytometry and analysis of the stomatal length. The triploid (2n = 3x = 57)M. sinensis‘Goliath’ andM. ×giganteusclones possessed the highest 2C DNA content (8.34 pg and 7.43 pg, respectively). The intermediate 2C-values were found in the nuclei of the diploid (2n = 2x = 38)M. sinensisaccessions (5.52–5.72 pg), whereas they were the lowest in the diploid (2n = 2x = 38)M. sacchariflorusecotypes (4.58–4.59 pg). The presented study revealed interspecific variation of nuclear DNA content (P<0.01) and therefore allowed for recognition of particular taxa, inter- and intraspecific hybrids and prediction of potential parental components. Moreover, intraspecific genome size variation (P<0.01) was observed inM. sinensiscultivars at 3.62%. The values of the stomatal size obtained for the triploidM. ×giganteus‘Great Britain’ (mean 30.70 μm) or ‘Canada’ (mean 29.67 μm) and diploidM. sinensis‘Graziella’ (mean 29.96 μm) did not differ significantly, therefore this parameter is not recommended for ploidy estimation.

scholarly journals Genome size variation in the North American sunfish genus Lepomis (Pisces: Centrarchidae)

1989 ◽  
Vol 53 (3) ◽  
pp. 173-182 ◽  
Author(s):  
Chara J. Ragland ◽  
John R. Gold
Keyword(s):  
Genome Size ◽  
North American ◽  
Size Variation ◽  
Hierarchical Level ◽  
Size Difference ◽  
Similar Data ◽  
Genome Size Variation ◽  
The North ◽  
Essentially Normal ◽  
Genome Size Evolution

SummaryGenome sizes (nuclear DNA contents) were documented spectrophotometrically from individuals of each of nine species of the North American centrarchid (sunfish) genus Lepomis. The distributions of DNA values within and among the nine species were essentially normal and continuous, suggesting that changes in DNA quantity in Lepomis are small in amount, involve both gains and losses of DNA, and are cumulative and independent in effect. Significant differences in mean genome size were found between individuals within populations in all nine species and between species. Nested analysis of variance and comparisons of average genome size difference or distance between individuals drawn from different levels of taxonomic organization revealed that the majority of genome size divergence in Lepomis occurs above the hierarchical level of individuals within populations. The Lepomis data when compared to similar data from North American cyprinid fishes appear to suggest that: (i) genome size evolution in these fishes at least follows a continuous rather than a discontinuous mode; (ii) the general predictions of hypothetical models relating genome size variation as a function of organismal position along adaptive continua may be oversimplified, or not applicable to complex, higher eukaryotes; and (iii) changes in genome size in these fishes may be concentrated in speciation episodes.

Sign in / Sign up

Export Citation Format

Share Document