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https://www.readbyqxmd.com/read/29332309/how-have-leaves-of-mycoheterotrophic-plants-evolved-from-the-view-point-of-a-developmental-biologist
#1
Hirokazu Tsukaya
How mycoheterotrophs have evolved and how they are sustained are an enigma. Structural analyses of the plastid genome and phylogenetic analyses of mycoheterotrophs have been used to identify mycorrhizal fungi. Molecular genetic studies have also revealed the mechanism for plant-fungi interactions. However, the evolution of the small, scale-like vegetative leaves of mycoheterotrophs is unknown. As almost all genes determining leaf size affect the floral organ sizes, it is highly implausible that loss-of-function mutations in leaf size regulators caused the evolution of smaller foliage leaves in mycoheterotrophs...
January 14, 2018: New Phytologist
https://www.readbyqxmd.com/read/29332164/skewing-of-the-genetic-architecture-at-the-zmym3-human-specific-5-utr-short-tandem-repeat-in-schizophrenia
#2
F Alizadeh, A Bozorgmehr, J Tavakkoly-Bazzaz, M Ohadi
Differential expansion of a number of human short tandem repeats (STRs) at the critical core promoter and 5' untranslated region (UTR) support the hypothesis that at least some of these STRs may provide a selective advantage in human evolution. Following a genome-wide screen of all human protein-coding gene 5' UTRs based on the Ensembl database ( http://www.ensembl.org ), we previously reported that the longest STR in this interval is a (GA)32, which belongs to the X-linked zinc finger MYM-type containing 3 (ZMYM3) gene...
January 13, 2018: Molecular Genetics and Genomics: MGG
https://www.readbyqxmd.com/read/29331867/classification-and-evolution-of-human-papillomavirus-genome-variants-alpha-5-hpv26-51-69-82-alpha-6-hpv30-53-56-66-alpha-11-hpv34-73-alpha-13-hpv54-and-alpha-3-hpv61
#3
Zigui Chen, Mark Schiffman, Rolando Herrero, Rob DeSalle, Kathryn Anastos, Michel Segondy, Vikrant V Sahasrabuddhe, Patti E Gravitt, Ann W Hsing, Paul K S Chan, Robert D Burk
HPV variants from the same type can be classified into lineages and sublineages based on the complete genome differences and the phylogenetic topologies. We examined nucleotide variations of twelve HPV types within the species Alpha-5 (HPV26, 51, 69, 82), Alpha-6 (HPV30, 53, 56, 66), Alpha-11 (HPV34, 73), Alpha-13 (HPV54) and Alpha-3 (HPV61) by analyzing 1432 partial sequences and 181 complete genomes from multiple geographic populations. The inter-lineage and inter-sublineage mean differences of HPV variants ranged between 0...
January 11, 2018: Virology
https://www.readbyqxmd.com/read/29331830/fetal-development-of-the-poeppig-s-woolly-monkey-lagothrix-poeppigii
#4
Rafael Dos Santos de Andrade, Frederico Ozanan Barros Monteiro, Hani Rocha El Bizri, Wilter Ricardo Russiano Vicente, Diva Anelie de Araujo Guimarães, Pedro Mayor
The intrauterine development is an evolutionary strategy that prepares the neonate for extra-uterine life, thus providing important information on the life history of species. In this study, we described the external and internal morphology of 25 fetuses of Poeppig's woolly monkeys (Lagothrix poeppigii) by taking advantage of a 10-year participatory collection of biological samples originated from animals hunted for subsistence purposes in the Peruvian Amazon. Logistic regressions estimated the probability of occurrence of each external morphological characteristic in relation to the crown-rump length (CRL)...
December 8, 2017: Theriogenology
https://www.readbyqxmd.com/read/29331671/the-molecular-characteristics-of-avian-influenza-viruses-h9n2-derived-from-air-samples-in-live-poultry-markets
#5
Yanheng Wu, Jinsi Lin, Shuhuan Yang, Ying Xie, Man Wang, Xueqin Chen, Yayang Zhu, Le Luo, Wuyang Shi
OBJECTIVE: To study the molecular characteristics of H9N2-subtype avian influenza viruses (AIVs) isolated from air samples collected in live poultry markets (LPMs) and explore their sequence identities with AIVs that caused human infection. METHODS: Weekly surveillance of H9N2-subtype AIVs in the air of LPMs was conducted from 2015 to 2016. H9-positive samples were isolated from chicken embryos. Whole genome sequences of the isolated AIVs were obtained through high-throughput sequencing...
January 10, 2018: Infection, Genetics and Evolution
https://www.readbyqxmd.com/read/29331642/protein-adaptations-in-extremophiles-an-insight-into-extremophilic-connection-of-mycobacterial-proteome
#6
REVIEW
Ashutosh Kumar, Anwar Alam, Deeksha Tripathi, Mamta Rani, Hafeeza Khatoon, Saurabh Pandey, Nasreen Z Ehtesham, Seyed E Hasnain
The biological paradox about how extremophiles persist at extreme ecological conditions throws a fascinating picture of the enormous potential of a single cell to adapt to homeostatic conditions in order to propagate. Unicellular organisms face challenges from both environmental factors and the ecological niche provided by the host tissue. Although the existence of extremophiles and their physiological properties were known for a long time, availability of whole genome sequence has catapulted the study on mechanisms of adaptation and the underlying principles that have enabled these unique organisms to withstand evolutionary and environmental pressures...
January 10, 2018: Seminars in Cell & Developmental Biology
https://www.readbyqxmd.com/read/29331616/paediatric-video-laryngoscopy-and-airway-management-what-s-the-clinical-evidence
#7
Xue Fu-Shan, Liu Ya-Yang, Li Hui-Xian, Yang Gui-Zhen
The major complications of paediatric airway management are uncommon, but the outcomes are often severe. Over the last decade, additions and advancements in the devices and technology have significantly improved our ability to manage difficult paediatric airways safely. Videolaryngoscopy involves the use of video and optical technology to facilitate indirect visualisation of the larynx during intubation and has been seen as an evolutionary step in intubation technology. Over the past few years, video laryngoscopes have been receiving plenty of attention as new airway devices for use in paediatric patients...
January 10, 2018: Anaesthesia, Critical Care & Pain Medicine
https://www.readbyqxmd.com/read/29331490/supervised-machine-learning-for-population-genetics-a-new-paradigm
#8
REVIEW
Daniel R Schrider, Andrew D Kern
As population genomic datasets grow in size, researchers are faced with the daunting task of making sense of a flood of information. To keep pace with this explosion of data, computational methodologies for population genetic inference are rapidly being developed to best utilize genomic sequence data. In this review we discuss a new paradigm that has emerged in computational population genomics: that of supervised machine learning (ML). We review the fundamentals of ML, discuss recent applications of supervised ML to population genetics that outperform competing methods, and describe promising future directions in this area...
January 10, 2018: Trends in Genetics: TIG
https://www.readbyqxmd.com/read/29331337/elastin-in-lung-development-and-disease-pathogenesis
#9
REVIEW
Robert P Mecham
Elastin is expressed in most tissues that require elastic recoil. The protein first appeared coincident with the closed circulatory system, and was critical for the evolutionary success of the vertebrate lineage. Elastin is expressed by multiple cell types in the lung, including mesothelial cells in the pleura, smooth muscle cells in airways and blood vessels, endothelial cells, and interstitial fibroblasts. This highly crosslinked protein associates with fibrillin-containing microfibrils to form the elastic fiber, which is the physiological structure that functions in the extracellular matrix...
January 10, 2018: Matrix Biology: Journal of the International Society for Matrix Biology
https://www.readbyqxmd.com/read/29330969/is-salinity-an-obstacle-for-biological-invasions
#10
Filipa Paiva, Andrea Barco, Yiyong Chen, Alireza Mirzajani, Farrah T Chan, Velda Lauringson, Miguel Baltazar-Soares, Aibin Zhan, Sarah A Bailey, Jamileh Javidpour, Elizabeta Briski
Invasions of freshwater habitats by marine and brackish species have become more frequent in recent years with many of those species originating from the Ponto-Caspian region. Populations of Ponto-Caspian species have successfully established in the North and Baltic Seas and their adjoining rivers, as well as in the Great Lakes-St. Lawrence River region. To determine if Ponto-Caspian taxa more readily acclimatize to and colonize diverse salinity habitats than taxa from other regions, we conducted laboratory experiments on 22 populations of eight gammarid species native to the Ponto-Caspian, Northern European and Great Lakes-St...
January 13, 2018: Global Change Biology
https://www.readbyqxmd.com/read/29330957/behavioral-correlates-of-cranial-muscle-functional-morphology
#11
Adam Hartstone-Rose, Sharlene E Santana
This issue of the Anatomical Record is the first of a two-volume set that focuses on new investigations into behavioral correlates of muscle functional morphology. Much of the research on functional morphology and adaptation to specific functional niches focuses on the shapes of hard-tissues-bones and teeth. Investigations into soft-tissue anatomy tend to be predominantly descriptive with only brief allusion to ontogenetic or evolutionary origins of structures. When muscles are included in analyses of functional systems, their function tends to be oversimplified-usually considered a simple force vector connecting two osteological points, with the force treated as a constant derived from some simple calculation of muscle size...
February 2018: Anatomical Record: Advances in Integrative Anatomy and Evolutionary Biology
https://www.readbyqxmd.com/read/29330949/functional-morphology-of-mimetic-musculature-in-primates-how-social-variables-and-body-size-stack-up-to-phylogeny
#12
Anne M Burrows
Mammalian skeletal muscle is influenced by the functional demands placed upon it. Functional morphology of facial expression musculature, or mimetic musculature, is largely unknown. Recently, primate mimetic musculature has been shown to respond to demands associated with social factors. Body size has also been demonstrated to affect many aspects of primate functional morphology and evolutionary morphology. The present study was designed to further examine the role of social variables and body size in influencing the morphology of primate mimetic musculature using a broad phylogenetic range of primates, primates with varying body sizes, and those that exploit differing time of day activity cycles and social group sizes...
February 2018: Anatomical Record: Advances in Integrative Anatomy and Evolutionary Biology
https://www.readbyqxmd.com/read/29330942/skeletal-development-in-the-heterocercal-caudal-fin-of-spotted-gar-lepisosteus-oculatus-and-other-lepisosteiformes
#13
Thomas Desvignes, Andrew Carey, Ingo Braasch, Trevor Enright, John H Postlethwait
BACKGROUND: The caudal fin of actinopterygians experienced substantial morphological changes during evolution. In basal actinopterygians, the caudal fin skeleton supports an asymmetrical heterocercal caudal fin, while most teleosts have a symmetrical homocercal caudal fin. The transition from the ancestral heterocercal form to the derived homocercal caudal fin remains poorly understood. Few developmental studies provide an understanding of derived and ancestral characters among basal actinopterygians...
January 13, 2018: Developmental Dynamics: An Official Publication of the American Association of Anatomists
https://www.readbyqxmd.com/read/29330664/an-iranian-genomic-sequence-of-beet-mosaic-virus-provides-insights-into-diversity-and-evolution-of-the-world-population
#14
Musa Mohammadi, Adrian J Gibbs, Ahmad Hosseini, Samin Hosseini
Beet mosaic virus (BtMV), the only Potyvirus known to infect sugar beet, occurs worldwide in beet crops. The full genome sequencing of a BtMV isolate from Iran (Ir-VRU), enabled us to better understand the evolutionary history of this virus. Selection analysis suggested that BtMV evolution is mainly under negative selection but its strength varies in different proteins with the multifunctional proteins under strongest selection. Recombination has played a major role in the evolution of the BtMVs; only the Ir-VRU and USA isolates show no evidence of recombination...
January 12, 2018: Virus Genes
https://www.readbyqxmd.com/read/29330556/evolution-of-the-phosphatidylcholine-biosynthesis-pathways-in-green-algae-combinatorial-diversity-of-methyltransferases
#15
Takashi Hirashima, Masakazu Toyoshima, Takashi Moriyama, Naoki Sato
Phosphatidylcholine (PC) is one of the most common phospholipids in eukaryotes, although some green algae such as Chlamydomonas reinhardtii are known to lack PC. Recently, we detected PC in four species in the genus Chlamydomonas: C. applanata NIES-2202, C. asymmetrica NIES-2207, C. debaryana NIES-2212, and C. sphaeroides NIES-2242. To reveal the PC biosynthesis pathways in green algae and the evolutionary scenario involved in their diversity, we analyzed the PC biosynthesis genes in these four algae using draft genome sequences...
January 12, 2018: Journal of Molecular Evolution
https://www.readbyqxmd.com/read/29330536/carbon-limitation-drives-gc-content-evolution-of-a-marine-bacterium-in-an-individual-based-genome-scale-model
#16
Ferdi L Hellweger, Yongjie Huang, Haiwei Luo
An important unanswered question in evolutionary genomics is the source of considerable variation of genomic base composition (GC content) even among organisms that share one habitat. Evolution toward GC-poor genomes has been considered a major adaptive pathway in the oligotrophic ocean, but GC-rich bacteria are also prevalent and highly successful in this environment. We quantify the contribution of multiple factors to the change of genomic GC content of Ruegeria pomeroyi DSS-3, a representative and GC-rich member in the globally abundant Roseobacter clade, using an agent-based model...
January 12, 2018: ISME Journal
https://www.readbyqxmd.com/read/29330451/tracheophyte-genomes-keep-track-of-the-deep-evolution-of-the-caulimoviridae
#17
Seydina Issa Diop, Andrew D W Geering, Françoise Alfama-Depauw, Mikaël Loaec, Pierre-Yves Teycheney, Florian Maumus
Endogenous viral elements (EVEs) are viral sequences that are integrated in the nuclear genomes of their hosts and are signatures of viral infections that may have occurred millions of years ago. The study of EVEs, coined paleovirology, provides important insights into virus evolution. The Caulimoviridae is the most common group of EVEs in plants, although their presence has often been overlooked in plant genome studies. We have refined methods for the identification of caulimovirid EVEs and interrogated the genomes of a broad diversity of plant taxa, from algae to advanced flowering plants...
January 12, 2018: Scientific Reports
https://www.readbyqxmd.com/read/29330206/evolution-of-cytogenetically-normal-acute-myeloid-leukemia-during-therapy-and-relapse-an-exome-sequencing-study-of-50-patients
#18
Philipp A Greif, Luise Hartmann, Sebastian Vosberg, Sophie Stief, Raphael Mattes, Ines Hellmann, Klaus H Metzeler, Tobias Herold, Stefanos Bamopoulos, Paul Kerbs, Vindi Jurinovic, Daniela Schumacher, Friederike Pastore, Kathrin Bräundl, Evelyn Zellmeier, Bianka Ksienzyk, Nikola Konstandin, Stephanie Schneider, Alexander Graf, Stefan Krebs, Helmut Blum, Martin Neumann, Claudia Baldus, Stefan K Bohlander, Stephan Wolf, Dennis Goerlich, Wolfgang E Berdel, Bernhard J Woermann, Wolfgang Hiddemann, Karsten Spiekermann
PURPOSE: To study mechanisms of therapy-resistance and disease progression, we analyzed the evolution of cytogenetically normal acute myeloid leukemia (CN-AML) based on somatic alterations. EXPERIMENTAL DESIGN: We performed exome-sequencing of matched diagnosis, remission and relapse samples from 50 CN-AML patients treated with intensive chemotherapy. Mutation patterns were correlated with clinical parameters. RESULTS: Evolutionary patterns correlated with clinical outcome...
January 12, 2018: Clinical Cancer Research: An Official Journal of the American Association for Cancer Research
https://www.readbyqxmd.com/read/29330187/acquisition-of-a-novel-sulfur-oxidizing-symbiont-in-the-gutless-marine-worm-inanidrilus-exumae
#19
C Bergin, C Wentrup, N Brewig, A Blazejak, C Erséus, O Giere, M Schmid, P De Wit, N Dubilier
Gutless phallodrilines are marine annelid worms without a mouth or gut, which live in an obligate association with multiple bacterial endosymbionts that supply them with nutrition. In this study, we discovered an unusual symbiont community in the gutless phallodriline Inanidrilus exumae that differs markedly from the microbiome of all other 22 examined host species. Comparative 16S rRNA gene sequence analysis and fluorescence in situ hybridization revealed that I. exumae harboured co-occurring gamma-, alpha- and deltaproteobacterial symbionts, while all other known host species harbour gamma- and either alpha- or deltaproteobacterial symbionts...
January 12, 2018: Applied and Environmental Microbiology
https://www.readbyqxmd.com/read/29330088/the-flight-of-the-locus-of-selection-some-intricate-relationships-between-evolutionary-elements
#20
REVIEW
April M Becker
Selection has enriched our understanding of the world since it was first applied to the evolution of species. Selection stands as an alternative to essentialist thinking, as a generalized and multiply applicable concept, and as a causal explanation for current forms within biology and behavior. Attempts to describe selection processes in a generalizable way have provided clarity about their minimal elements, such as replicators and interactors. This paper discusses the interconnectedness among different levels of selection using evidence garnered from evolutionary biology, development, epigenetics, neuroscience, and behavior analysis...
January 9, 2018: Behavioural Processes
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