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BMC Evolutionary Biology

Qian H Gu, Martin Husemann, Hui H Wu, Jing Dong, Chuan J Zhou, Xian F Wang, Yun N Gao, Man Zhang, Guo R Zhu, Guo X Nie
BACKGROUND: Species diversity is determined by both local environmental conditions that control differentiation and extinction and the outcome of large-scale processes that affect migration. The latter primarily comprises climatic change and dynamic landscape alteration. In the past few million years, both Southeast Asia and Eastern Africa experienced drastic climatic and geological oscillations: in Southeast Asia, especially in China, the Tibetan Plateau significantly rose up, and the flow of the Yangtze River was reversed...
March 21, 2019: BMC Evolutionary Biology
Paul M Oliver, Lauren G Ashman, Sarah Bank, Rebecca J Laver, Renae C Pratt, Leonardo G Tedeschi, Craig C Moritz
BACKGROUND: Congruent patterns in the distribution of biodiversity between regions or habitats suggest that key factors such as climatic and topographic variation may predictably shape evolutionary processes. In a number of tropical and arid biomes, genetic analyses are revealing deeper and more localised lineage diversity in rocky ranges than surrounding habitats. Two potential drivers of localised endemism in rocky areas are refugial persistence through climatic change, or ecological diversification and specialisation...
March 20, 2019: BMC Evolutionary Biology
Agnes Piecyk, Olivia Roth, Martin Kalbe
BACKGROUND: Host genotype - parasite genotype co-evolutionary dynamics are influenced by local biotic and abiotic environmental conditions. This results in spatially heterogeneous selection among host populations. How such heterogeneous selection influences host resistance, parasite infectivity and virulence remains largely unknown. We hypothesized that different co-evolutionary trajectories of a vertebrate host-parasite association result in specific virulence patterns when assessed on a large geographic scale...
March 19, 2019: BMC Evolutionary Biology
Zhijun Zhou, Huifang Guo, Li Han, Jinyan Chai, Xuting Che, Fuming Shi
BACKGROUND: DNA barcoding has been developed as a useful tool for species discrimination. Several sequence-based species delimitation methods, such as Barcode Index Number (BIN), REfined Single Linkage (RESL), Automatic Barcode Gap Discovery (ABGD), a Java program uses an explicit, determinate algorithm to define Molecular Operational Taxonomic Unit (jMOTU), Generalized Mixed Yule Coalescent (GMYC), and Bayesian implementation of the Poisson Tree Processes model (bPTP), were used. Our aim was to estimate Chinese katydid biodiversity using standard DNA barcode cytochrome c oxidase subunit I (COI-5P) sequences...
March 14, 2019: BMC Evolutionary Biology
Pu Liu, Yue Zou, Jiangan Hou, Steven L Stephenson, Yu Li
BACKGROUND: Dictyostelid cellular slime molds (dictyostelids) are microscopic throughout their entire life cycle. The vegetative phase consists of single-celled amoeboid forms which live in the soil/leaf litter microhabitat of fields and forests along with animal dung, where they feed upon bacteria and other microbes, grow, and multiply until the available food supply is exhausted. When this happens, the amoeboid forms aggregate together in large numbers to form multi-celled pseudoplasmodia, which then give rise to fruiting bodies (sorocarps) that consist of supportive stalks and unwalled sori containing propagative spores...
March 14, 2019: BMC Evolutionary Biology
Nicholas L Panchy, Christina B Azodi, Eamon F Winship, Ronan C O'Malley, Shin-Han Shiu
BACKGROUND: Transcription factors (TFs) play a key role in regulating plant development and response to environmental stimuli. While most genes revert to single copy after whole genome duplication (WGD) event, transcription factors are retained at a significantly higher rate. Little is known about how TF duplicates have diverged in their expression and regulation, the answer to which may contribute to a better understanding of the elevated retention rate among TFs. RESULTS: Here we assessed what features may explain differences in the retention of TF duplicates and other genes using Arabidopsis thaliana as a model...
March 13, 2019: BMC Evolutionary Biology
Muniba Faiza, Shengfeng Huang, Dongming Lan, Yonghua Wang
BACKGROUND: Unspecific peroxygenases (UPO) (EC represent an intriguing oxidoreductase sub-subclass of heme proteins with peroxygenase and peroxidase activity. With over 300 identified substrates, UPOs catalyze numerous oxidations including 1- or 2- electron oxygenation, selective oxyfunctionalizations, which make them most significant in organic syntheses and potentially attractive as industrial biocatalysts. There are very few UPOs available with distinct properties, notably, MroUPO which shows behavior ranging between UPO and another heme-thiolate peroxidase, called Chloroperoxidase (CPO)...
March 13, 2019: BMC Evolutionary Biology
Camilo López-Aguirre, Suzanne J Hand, Daisuke Koyabu, Nguyen Truong Son, Laura A B Wilson
BACKGROUND: Self-powered flight is one of the most energy-intensive types of locomotion found in vertebrates. It is also associated with a range of extreme morpho-physiological adaptations that evolved independently in three different vertebrate groups. Considering that development acts as a bridge between the genotype and phenotype on which selection acts, studying the ossification of the postcranium can potentially illuminate our understanding of bat flight evolution. However, the ontogenetic basis of vertebrate flight remains largely understudied...
March 12, 2019: BMC Evolutionary Biology
Gavin C Woodruff, Erik Johnson, Patrick C Phillips
BACKGROUND: Variation in body size is thought to be a major driver of a wide variety of ecological and evolutionary patterns, including changes in development, reproduction, and longevity. Additionally, drastic changes in natural context often have profound effects on multiple fitness-related traits. Caenorhabditis inopinata is a recently-discovered fig-associated nematode that is unusually large relative to other members of the genus, including the closely related model system C. elegans...
March 11, 2019: BMC Evolutionary Biology
Suman Seemab, Nashaiman Pervaiz, Rabail Zehra, Saneela Anwar, Yiming Bao, Amir Ali Abbasi
BACKGROUND: Frizzled family members belong to G-protein coupled receptors and encode proteins accountable for cell signal transduction, cell proliferation and cell death. Members of Frizzled receptor family are considered to have critical roles in causing various forms of cancer, cardiac hypertrophy, familial exudative vitreoretinopathy (FEVR) and schizophrenia. RESULTS: This study investigates the evolutionary and structural aspects of Frizzled receptors, with particular focus on FEVR associated FZD4 gene...
March 8, 2019: BMC Evolutionary Biology
Weerayuth Supiwong, Krit Pinthong, Kriengkrai Seetapan, Pasakorn Saenjundaeng, Luiz A C Bertollo, Ezequiel A de Oliveira, Cassia F Yano, Thomas Liehr, Sumalee Phimphan, Alongklod Tanomtong, Marcelo B Cioffi
BACKGROUND: Synbranchidae or swamp eels are fishes belonging to the order Synbranchiformes that occur in both freshwater and occasionally in brackish. They are worldwide distributed in tropical and subtropical rivers of four different continents. A large degree of chromosomal variation has been found in this family, mainly through the use of conventional cytogenetic investigations. Inside this group, a still almost unexplored species under the cytogenetic point of view is the Asian swamp eel Monopterus albus, a widely distributed species throughout Asia...
March 8, 2019: BMC Evolutionary Biology
Aurore Canoville, Mary H Schweitzer, Lindsay E Zanno
BACKGROUND: Medullary bone (MB) is an estrogen-dependent, sex-specific tissue produced by female birds during lay and inferred to be present in extinct avemetatarsalians (bird-line archosaurs). Although preliminary studies suggest that MB can be deposited within most skeletal elements, these are restricted to commercial layers or hormonally treated male pigeons, which are poor analogues for wild birds. By contrast, studies in wild bird species noted the presence of MB almost exclusively within limb bones, spurring the misconception that MB deposition is largely restricted to these regions...
March 7, 2019: BMC Evolutionary Biology
Wan-Jin Liao, Bi-Ru Zhu, Yue-Fei Li, Xiao-Meng Li, Yan-Fei Zeng, Da-Yong Zhang
BACKGROUND: Much of the debate over the evolutionary consequences of hybridization on genetic divergence and speciation results from the breakdown or reinforcement of reproductive barriers in secondary hybrid zones. Among hybrid populations established for different lengths of time following secondary contact, stronger reproductive barriers are generally expected to occur in zones with longer contact. However, in plants no detailed investigation of recent and ancient zones of secondary contact has been conducted despite the importance of such a comparative study...
March 6, 2019: BMC Evolutionary Biology
T Aghová, K Palupčíková, R Šumbera, D Frynta, L A Lavrenchenko, Y Meheretu, J Sádlová, J Votýpka, J S Mbau, D Modrý, J Bryja
BACKGROUND: Spiny mice of the genus Acomys are distributed mainly in dry open habitats in Africa and the Middle East, and they are widely used as model taxa for various biological disciplines (e.g. ecology, physiology and evolutionary biology). Despite their importance, large distribution and abundance in local communities, the phylogeny and the species limits in the genus are poorly resolved, and this is especially true for sub-Saharan taxa. The main aims of this study are (1) to reconstruct phylogenetic relationships of Acomys based on the largest available multilocus dataset (700 genotyped individuals from 282 localities), (2) to identify the main biogeographical divides in the distribution of Acomys diversity in dry open habitats in Afro-Arabia, (3) to reconstruct the historical biogeography of the genus, and finally (4) to estimate the species richness of the genus by application of the phylogenetic species concept...
March 4, 2019: BMC Evolutionary Biology
Shohei Takuno, Ryutaro Miyagi, Jun-Ichi Onami, Shiho Takahashi-Kariyazono, Akie Sato, Herbert Tichy, Masato Nikaido, Mitsuto Aibara, Shinji Mizoiri, Hillary D J Mrosso, Semvua I Mzighani, Norihiro Okada, Yohey Terai
BACKGROUND: The molecular basis of the incipient stage of speciation is still poorly understood. Cichlid fish species in Lake Victoria are a prime example of recent speciation events and a suitable system to study the adaptation and reproductive isolation of species. RESULTS: Here, we report the pattern of genomic differentiation between two Lake Victoria cichlid species collected in sympatry, Haplochromis pyrrhocephalus and H. sp. 'macula,' based on the pooled genome sequences of 20 individuals of each species...
March 4, 2019: BMC Evolutionary Biology
Jan Mrázek, Anna C Karls
BACKGROUND: Interactions between transcription factors and their specific binding sites are a key component of regulation of gene expression. Until recently, it was generally assumed that most bacterial transcription factor binding sites are located at or near promoters. However, several recent works utilizing high-throughput technology to detect transcription factor binding sites in bacterial genomes found a large number of binding sites in unexpected locations, particularly inside genes, as opposed to known or expected promoter regions...
March 1, 2019: BMC Evolutionary Biology
Margot Fortin, Joël Meunier, Tiffany Laverré, Catherine Souty-Grosset, Freddie-Jeanne Richard
BACKGROUND: In species that reproduce with sexual reproduction, males and females often have opposite strategies to maximize their own fitness. For instance, males are typically expected to maximize their number of mating events, whereas an excessive number of mating events can be costly for females. Although the risk of sexual harassment by males and resulting costs for females are expected to increase with the proportion of males, it remains unknown whether and how parasitic distorters of a host population's sex-ratio can shape this effect on the fitness of females...
February 28, 2019: BMC Evolutionary Biology
Matthias Thalmann, Mario Coiro, Tiago Meier, Thomas Wicker, Samuel C Zeeman, Diana Santelia
BACKGROUND: β-Amylases (BAMs) are a multigene family of glucan hydrolytic enzymes playing a key role not only for plant biology but also for many industrial applications, such as the malting process in the brewing and distilling industries. BAMs have been extensively studied in Arabidopsis thaliana where they show a surprising level of complexity in terms of specialization within the different isoforms as well as regulatory functions played by at least three catalytically inactive members...
February 28, 2019: BMC Evolutionary Biology
Jean A Trejaut, Frank Muyard, Ying-Hui Lai, Lan-Rong Chen, Zong-Sian Chen, Jun-Hun Loo, Jin-Yuan Huang, Marie Lin
BACKGROUND: Despite attempts in retracing the history of the Thao people in Taiwan using folktales, linguistics, physical anthropology, and ethnic studies, their history remains incomplete. The heritage of Thao has been associated with the Pazeh Western plains peoples and several other mountain peoples of Taiwan. In the last 400 years, their culture and genetic profile have been reshaped by East Asian migrants. They were displaced by the Japanese and the construction of a dam and almost faced extinction...
February 27, 2019: BMC Evolutionary Biology
Ksenia V Strygina, Elena K Khlestkina
BACKGROUND: The members of the Triticeae tribe are characterised by the presence of orthologous and homoeologous gene copies regulating flavonoid biosynthesis. Among transcription factors constituting a regulatory MBW complex, the greatest contribution to the regulation of flavonoid biosynthetic pathway is invested by R2R3-Myb-type TFs. Differently expressed R2R3-Myb copies activate the synthesis of various classes of flavonoid compounds in different plant tissues. The aim of this research was the identification, comparison and analysis of full-length sequences of the duplicated R2R3-Myb Mpc1 (Myb protein c1) gene copies in barley and wheat genomes...
February 26, 2019: BMC Evolutionary Biology
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