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https://www.readbyqxmd.com/read/29788048/robustness-of-transposable-element-regulation-but-no-genomic-shock-observed-in-interspecific-arabidopsis-hybrids
#1
Ulrike Göbel, Agustin Arce, Fei He, Alain Rico, Gregor Schmitz, Juliette de Meaux
The merging of two divergent genomes in a hybrid is believed to trigger a "genomic shock", disrupting gene regulation and transposable element (TE) silencing. Here, we tested this expectation by comparing the pattern of expression of transposable elements in their native and hybrid genomic context. For this, we sequenced the transcriptome of the Arabidopsis thaliana genotype Col-0, the A. lyrata genotype MN47 and their F1 hybrid. Contrary to expectations, we observe that the level of TE expression in the hybrid is strongly correlated to levels in the parental species...
May 18, 2018: Genome Biology and Evolution
https://www.readbyqxmd.com/read/29774045/transposon-derived-non-coding-rnas-and-their-function-in-plants
#2
REVIEW
Jungnam Cho
Transposable elements (TEs) are often regarded as harmful genomic factors and indeed they are strongly suppressed by the epigenetic silencing mechanisms. On the other hand, the mobilization of TEs brings about variability of genome and transcriptome which are essential in the survival and evolution of the host species. The vast majority of such controlling TEs influence the neighboring genes in cis by either promoting or repressing the transcriptional activities. Although TEs are highly repetitive in the genomes and transcribed in specific stress conditions or developmental stages, the trans -acting regulatory roles of TE-derived RNAs have been rarely studied...
2018: Frontiers in Plant Science
https://www.readbyqxmd.com/read/29762876/constant-conflict-between-gypsy-ltr-retrotransposons-and-chh-methylation-within-a-stress-adapted-mangrove-genome
#3
Yushuai Wang, Weiqi Liang, Tian Tang
The evolutionary dynamics of the conflict between transposable elements (TEs) and their host genome remain elusive. This conflict will be intense in stress-adapted plants as stress can often reactivate TEs. Mangroves reduce TE load convergently in their adaptation to intertidal environments and thus provide a unique opportunity to address the host-TE conflict and its interaction with stress adaptation. Using the mangrove Rhizophora apiculata as a model, we investigated methylation and short interfering RNA (siRNA) targeting patterns in relation to the abundance and age of long terminal repeat (LTR) retrotransposons...
May 15, 2018: New Phytologist
https://www.readbyqxmd.com/read/29747401/the-dna-methylome-and-association-of-differentially-methylated-regions-with-differential-gene-expression-during-heat-stress-in-brassica-rapa
#4
Gaofeng Liu, Yudong Xia, Tongkun Liu, Shaojun Dai, Xilin Hou
Cytosine DNA methylation is a critical epigenetic mechanism in the silencing of transposable elements, imprinting and regulating gene expression. However, little is known about the potential role of mC in response to heat stress. To determine and explore the functions of the dynamic DNA methylome during heat stress, we characterized single-base resolution methylome maps of Brassica rapa and assessed the dynamic changes of mC under heat stress using whole genome bisulfite sequencing. On average, the DNA methylation levels of CG, CHG and CHH are 39...
May 9, 2018: International Journal of Molecular Sciences
https://www.readbyqxmd.com/read/29739320/mobilization-of-retrotransposons-as-a-cause-of-chromosomal-diversification-and-rapid-speciation-the-case-for-the-antarctic-teleost-genus-trematomus
#5
J Auvinet, P Graça, L Belkadi, L Petit, E Bonnivard, A Dettaï, W H Detrich, C Ozouf-Costaz, D Higuet
BACKGROUND: The importance of transposable elements (TEs) in the genomic remodeling and chromosomal rearrangements that accompany lineage diversification in vertebrates remains the subject of debate. The major impediment to understanding the roles of TEs in genome evolution is the lack of comparative and integrative analyses on complete taxonomic groups. To help overcome this problem, we have focused on the Antarctic teleost genus Trematomus (Notothenioidei: Nototheniidae), as they experienced rapid speciation accompanied by dramatic chromosomal diversity...
May 9, 2018: BMC Genomics
https://www.readbyqxmd.com/read/29725341/massive-loss-of-dna-methylation-in-nitrogen-but-not-in-phosphorus-deficient-zea-mays-roots-is-poorly-correlated-with-gene-expression-differences
#6
Svenja Mager, Uwe Ludewig
DNA methylation in plants plays a role in transposon silencing, genome stability and gene expression regulation. Environmental factors alter the methylation pattern of DNA and recently nutrient stresses, such as phosphate starvation, were shown to alter DNA methylation. Furthermore, DNA methylation had been frequently addressed in plants with notably small genomes that are poor in transposons. Here, we compare part of the DNA methylome of nitrogen- and phosphorus-deficient maize roots by reduced representation sequencing and analyze their relationship with gene expression under prolonged stresses...
2018: Frontiers in Plant Science
https://www.readbyqxmd.com/read/29705597/transposable-elements-all-mobile-all-different-some-stress-responsive-some-adaptive
#7
REVIEW
Sophie Lanciano, Marie Mirouze
Transposable elements (TEs) were first identified through the polymorphisms they induced in plants and animals. Genomic studies have later revealed that TEs were highly abundant in eukaryotic genomes. Recently, more precise single individual genomic analyses have unravelled the huge diversity of TE insertions in many plant and animal species. In most cases the stress conditions behind this diversity are not known and neither is the adaptive capacity of these natural TE-induced variants. Here, we review some of the most recent examples of TE-related impacts on gene expression at the locus or the genome level and discuss the rich diversity of the TE repertoire and its potential role in adaptive evolution...
April 26, 2018: Current Opinion in Genetics & Development
https://www.readbyqxmd.com/read/29581991/lifetime-traumatic-experiences-and-disordered-eating-among-university-students-the-role-of-posttraumatic-stress-symptoms
#8
Vilija Malinauskiene, Romualdas Malinauskas
The associations between lifetime traumatic events (TEs), posttraumatic stress (PTS) symptoms, and disordered eating (DE) were studied in a sample of 614 university students (mean age 20 years). An anonymous questionnaire included 32 lifetime TEs, IES-revised measured PTS symptoms, and EAT-26 evaluated DE symptoms. Statistical analyses included Pearson correlations and structural equation models (SEM) with bootstrapping method. Findings reveal the prevalence of DE in 8.1% of participants, while 73.9% of students experienced at least one lifetime TE...
2018: BioMed Research International
https://www.readbyqxmd.com/read/29561225/cerebrovascular-blood-oxygenation-level-dependent-pulsatility-at-baseline-and-following-acute-exercise-among-healthy-adolescents
#9
Athena E Theyers, Benjamin I Goldstein, Arron Ws Metcalfe, Andrew D Robertson, Bradley J MacIntosh
Arterial stiffness is linked to cerebral small vessel damage and neurodegeneration, but barriers to accessing deep cerebrovascular anatomy limit our ability to assess the brain. This study describes an adaptation of a cardiac-related scrubbing method as a means of generating blood oxygenation level-dependent pulsatility maps based on the cardiac cycle. We examine BOLD pulsatility at rest, based on the non-parametric deviation from null metric, as well as changes following acute physiological stress from 20 min of moderate-intensity cycling in 45 healthy adolescents...
January 1, 2018: Journal of Cerebral Blood Flow and Metabolism
https://www.readbyqxmd.com/read/29475643/seasonal-assessment-of-trace-element-contamination-in-intertidal-sediments-of-the-meso-macrotidal-hooghly-ganges-river-estuary-with-a-note-on-mercury-speciation
#10
Priyanka Mondal, Rosivaldo de Alcântara Mendes, M P Jonathan, Jayanta Kumar Biswas, Kadarkarai Murugan, Santosh Kumar Sarkar
The spatial and seasonal distribution of trace elements (TEs) (n=16) in surficial sediment were examined along the Hooghly River Estuary (~175km), India. A synchronous elevation of majority of TEs concentration (mgkg-1 ) was encountered during monsoon with the following descending order: Al (67070); Fe (31300); Cd (5.73); Cr (71.17); Cu (29.09); Mn (658.74); Ni (35.89). An overall low and homogeneous concentration of total Hg (THg =17.85±4.98ngg-1 ) was recorded in which methyl mercury (MeHg) shared minor fraction (8-31%) of the THg ...
February 2018: Marine Pollution Bulletin
https://www.readbyqxmd.com/read/29453028/transposons-a-blessing-curse
#11
REVIEW
Manu J Dubin, Ortrun Mittelsten Scheid, Claude Becker
The genomes of most plant species are dominated by transposable elements (TEs). Once considered as 'junk DNA', TEs are now known to have a major role in driving genome evolution. Over the last decade, it has become apparent that some stress conditions and other environmental stimuli can drive bursts of activity of certain TE families and consequently new TE insertions. These can give rise to altered gene expression patterns and phenotypes, with new TE insertions sometimes causing flanking genes to become transcriptionally responsive to the same stress conditions that activated the TE in the first place...
February 13, 2018: Current Opinion in Plant Biology
https://www.readbyqxmd.com/read/29250089/abiotic-stress-phenotypes-are-associated-with-conserved-genes-derived-from-transposable-elements
#12
Zoé Joly-Lopez, Ewa Forczek, Emilio Vello, Douglas R Hoen, Akiko Tomita, Thomas E Bureau
Plant phenomics offers unique opportunities to accelerate our understanding of gene function and plant response to different environments, and may be particularly useful for studying previously uncharacterized genes. One important type of poorly characterized genes is those derived from transposable elements (TEs), which have departed from a mobility-driven lifestyle to attain new adaptive roles for the host (exapted TEs). We used phenomics approaches, coupled with reverse genetics, to analyze T-DNA insertion mutants of both previously reported and novel protein-coding exapted TEs in the model plant Arabidopsis thaliana ...
2017: Frontiers in Plant Science
https://www.readbyqxmd.com/read/29073138/why-reinvent-the-wheel-lessons-in-schistosomiasis-control-from-the-past
#13
Clive Shiff
Schistosomiasis has been of concern to local health authorities for most of the last century, and in spite of a lack of effective chemotherapy, the disease was dealt with quite effectively in many endemic countries by snail control and environmental management [1]. Much of this work was reported in journals prior to the electronic era but, sadly, seems to have been subsequently ignored. For many years, there followed a global hiatus on schistosomiasis control, and much of the local expertise was lost, but many things have changed more recently, mainly with the advent of generic and affordable praziquantel...
October 2017: PLoS Neglected Tropical Diseases
https://www.readbyqxmd.com/read/28991042/maximum-skin-wettedness-after-aerobic-training-with-and-without-heat-acclimation
#14
Nicholas Ravanelli, Geoff B Coombs, Pascal Imbeault, Ollie Jay
PURPOSE: To quantify how maximum skin wettedness (ωmax); that is, the determinant of the boundary between compensable and uncompensable heat stress, is altered by aerobic training in previously unfit individuals and further augmented by heat acclimation. METHODS: Eight untrained individuals completed an 8-wk aerobic training program immediately followed by 8 d of hot/humid (38°C, 65%RH) heat acclimation. Participants completed a humidity ramp protocol pretraining (PRE-TRN), posttraining (POST-TRN), and after heat acclimation (POST-HA), involving treadmill marching at a heat production of 450 W for 105 min in 37...
February 2018: Medicine and Science in Sports and Exercise
https://www.readbyqxmd.com/read/28947157/revisiting-the-relationship-between-transposable-elements-and-the-eukaryotic-stress-response
#15
REVIEW
Vivien Horváth, Miriam Merenciano, Josefa González
A relationship between transposable elements (TEs) and the eukaryotic stress response was suggested in the first publications describing TEs. Since then, it has often been assumed that TEs are activated by stress, and that this activation is often beneficial for the organism. In recent years, the availability of new high-throughput experimental techniques has allowed further interrogation of the relationship between TEs and stress. By reviewing the recent literature, we conclude that although there is evidence for a beneficial effect of TE activation under stress conditions, the relationship between TEs and the eukaryotic stress response is quite complex...
November 2017: Trends in Genetics: TIG
https://www.readbyqxmd.com/read/28877662/genome-wide-characterization-of-non-reference-transposable-element-insertion-polymorphisms-reveals-genetic-diversity-in-tropical-and-temperate-maize
#16
Xianjun Lai, James C Schnable, Zhengqiao Liao, Jie Xu, Gengyun Zhang, Chuan Li, Erliang Hu, Tingzhao Rong, Yunbi Xu, Yanli Lu
BACKGROUND: Maize was originally domesticated in a tropical environment but is now widely cultivated at temperate latitudes. Temperate and tropical maize populations have diverged both genotypically and phenotypically. Tropical maize lines grown in temperate environments usually exhibit delayed flowering, pollination, and seed set, which reduces their grain yield relative to temperate adapted maize lines. One potential mechanism by which temperate maize may have adapted to a new environment is novel transposable element insertions, which can influence gene regulation...
September 6, 2017: BMC Genomics
https://www.readbyqxmd.com/read/28854624/transposable-element-misregulation-is-linked-to-the-divergence-between-parental-pirna-pathways-in-drosophila-hybrids
#17
Valèria Romero-Soriano, Laurent Modolo, Hélène Lopez-Maestre, Bruno Mugat, Eugénie Pessia, Séverine Chambeyron, Cristina Vieira, Maria Pilar Garcia Guerreiro
Interspecific hybridization is a genomic stress condition that leads to the activation of transposable elements (TEs) in both animals and plants. In hybrids between Drosophila buzzatii and Drosophila koepferae, mobilization of at least 28 TEs has been described. However, the molecular mechanisms underlying this TE release remain poorly understood. To give insight on the causes of this TE activation, we performed a TE transcriptomic analysis in ovaries (notorious for playing a major role in TE silencing) of parental species and their F1 and backcrossed (BC) hybrids...
June 1, 2017: Genome Biology and Evolution
https://www.readbyqxmd.com/read/28805485/transcriptional-activity-of-transposable-elements-may-contribute-to-gene-expression-changes-in-the-syncytium-formed-by-cyst-nematode-in-arabidopsis-roots
#18
Sarbottam Piya, Morgan Bennett, Aditi Rambani, Tarek Hewezi
Transposable elements (TEs) are mobile genetic materials that constitute a large fraction of plant genomes. Recent experimental evidences indicate that TEs can play key regulatory roles in controlling the expression of adjacent genes during plant development and stress responses. Nevertheless, information about the transcriptional activity of TEs and their impact on proximal genes during plant-nematode interaction remains largely unknown. Here, we identify of differentially expressed TEs and report their possible influence on the expression of nearby genes during the susceptible interaction between the beet cyst nematode Heterodera schachtii and Arabidopsis thaliana...
September 2, 2017: Plant Signaling & Behavior
https://www.readbyqxmd.com/read/28796917/single-base-methylome-analysis-reveals-dynamic-epigenomic-differences-associated-with-water-deficit-in-apple
#19
Jidi Xu, Shasha Zhou, Xiaoqing Gong, Yi Song, Steve van Nocker, Fengwang Ma, Qingmei Guan
Cytosine methylation is an essential feature of epigenetic regulation and is involved in various biological processes. Although cytosine methylation has been analysed at the genomic scale for several plant species, there is a general lack of understanding of the dynamics of global and genic DNA methylation in plants growing in environments challenged with biotic and abiotic stresses. In this study, we mapped cytosine methylation at single-base resolution in the genome of commercial apple (Malus x domestica), and analysed changes in methylation patterns associated with water deficit in representative drought-sensitive and drought-tolerant cultivars...
February 2018: Plant Biotechnology Journal
https://www.readbyqxmd.com/read/28686667/quantitative-assessments-of-water-use-efficiency-in-temperate-eurasian-steppe-along-an-aridity-gradient
#20
Yizhao Chen, Jianlong Li, Weimin Ju, Honghua Ruan, Zhihao Qin, Yiye Huang, Nasreen Jeelani, José Padarian, Pavel Propastin
Water-use efficiency (WUE), defined as the ratio of net primary productivity (NPP) to evapotranspiration (ET), is an important indicator to represent the trade-off pattern between vegetation productivity and water consumption. Its dynamics under climate change are important to ecohydrology and ecosystem management, especially in the drylands. In this study, we modified and used a late version of Boreal Ecosystem Productivity Simulator (BEPS), to quantify the WUE in the typical dryland ecosystems, Temperate Eurasian Steppe (TES)...
2017: PloS One
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