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Genome evolution and evolutionary systems biology

Section edited by Maria Anisimova, Arndt von Haeseler and David Liberles

This section considers studies on genome evolution and systems biology approaches to determining evolutionary processes.

Page 1 of 9

  1. Content type: Research article

    Rapid accumulation of vertebrate genome sequences render comparative genomics a powerful approach to study macro-evolutionary events. The assessment of phylogenic relationships between species routinely depend...

    Authors: R. Huttener, L. Thorrez, T. in’t Veld, M. Granvik, L. Snoeck, L. Van Lommel and F. Schuit

    Citation: BMC Evolutionary Biology 2019 19:144

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  2. Content type: Research article

    Our laboratory identified ADGRL4/ELTD1, an orphan GPCR belonging to the adhesion GPCR (aGPCR) family, as a novel regulator of angiogenesis and a potential anti-cancer therapeutic target. Little is known about ...

    Authors: David M. Favara, Alison H. Banham and Adrian L. Harris

    Citation: BMC Evolutionary Biology 2019 19:143

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  3. Content type: Research article

    Previously, we have demonstrated that genes involved in ovarian function are highly conserved throughout evolution. In this study, we aimed to document the conservation of genes involved in spermatogenesis fro...

    Authors: Sophie Fouchécourt, Floriane Picolo, Sébastien Elis, Charlotte Lécureuil, Aurore Thélie, Marina Govoroun, Mégane Brégeon, Pascal Papillier, Jean-Jacques Lareyre and Philippe Monget

    Citation: BMC Evolutionary Biology 2019 19:137

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  4. Content type: Methodology article

    The evolutionary probability (EP) of an allele in a DNA or protein sequence predicts evolutionarily permissible (ePerm; EP ≥ 0.05) and forbidden (eForb; EP < 0.05) variants. EP of an allele represents an indep...

    Authors: Ravi Patel and Sudhir Kumar

    Citation: BMC Evolutionary Biology 2019 19:133

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  5. Content type: Research article

    The emergence of antimicrobial-resistant (AMR) strains of the important human and animal pathogen Salmonella enterica poses a growing threat to public health. Here, we studied the genome-wide evolution of 90 S. e...

    Authors: Jingqiu Liao, Renato Hohl Orsi, Laura M. Carroll, Jasna Kovac, Hongyu Ou, Hailong Zhang and Martin Wiedmann

    Citation: BMC Evolutionary Biology 2019 19:132

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  6. Content type: Research article

    The hypothesis that vertebrates have experienced two ancient, whole genome duplications (WGDs) is of central interest to evolutionary biology and has been implicated in evolution of developmental complexity. T...

    Authors: Nashaiman Pervaiz, Nazia Shakeel, Ayesha Qasim, Rabail Zehra, Saneela Anwar, Neenish Rana, Yongbiao Xue, Zhang Zhang, Yiming Bao and Amir Ali Abbasi

    Citation: BMC Evolutionary Biology 2019 19:128

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  7. Content type: Research article

    L-ascorbate (Vitamin C) is an important antioxidant and co-factor in eukaryotic cells, and in mammals it is indispensable for brain development and cognitive function. Vertebrates usually become L-ascorbate au...

    Authors: Sílvia F. Henriques, Pedro Duque, Hugo López-Fernández, Noé Vázquez, Florentino Fdez-Riverola, Miguel Reboiro-Jato, Cristina P. Vieira and Jorge Vieira

    Citation: BMC Evolutionary Biology 2019 19:126

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  8. Content type: Research article

    Mycobacteria occupy various ecological niches and can be isolated from soil, tap water and ground water. Several cause diseases in humans and animals. To get deeper insight into our understanding of mycobacter...

    Authors: Phani Rama Krishna Behra, B. M. Fredrik Pettersson, Sarbashis Das, Santanu Dasgupta and Leif A. Kirsebom

    Citation: BMC Evolutionary Biology 2019 19:124

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  9. Content type: Research article

    The S100A7 gene, also called psoriasin, was first described as an upregulated protein in psoriatic skin. For the past years, the importance of this protein as a key effector of innate immunity has been clearly es...

    Authors: Ana Águeda-Pinto, L. Filipe C. Castro and Pedro J. Esteves

    Citation: BMC Evolutionary Biology 2019 19:102

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  10. Content type: Research article

    Cellulose, a major polysaccharide of the plant cell wall, consists of β-1,4-linked glucose moieties forming a molecular network recalcitrant to enzymatic breakdown. Although cellulose is potentially a rich sou...

    Authors: André Busch, Etienne G. J. Danchin and Yannick Pauchet

    Citation: BMC Evolutionary Biology 2019 19:100

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  11. Content type: Research article

    The Micronycterinae form a subfamily of leaf-nosed bats (Phyllostomidae) that contains the genera Lampronycteris Sanborn, 1949, and Micronycteris Gray, 1866 (stricto sensu), and is characterized by marked karyoty...

    Authors: T. C. M. Benathar, C. Y. Nagamachi, L. R. R. Rodrigues, P. C. M. O’Brien, M. A. Ferguson-Smith, F. Yang and J. C. Pieczarka

    Citation: BMC Evolutionary Biology 2019 19:98

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  12. Content type: Research article

    Animals have a greater diversity of signalling pathways than their unicellular relatives, consistent with the evolution and expansion of these pathways occurring in parallel with the origin of animal multicell...

    Authors: Arunkumar Krishnan, Bernard M. Degnan and Sandie M. Degnan

    Citation: BMC Evolutionary Biology 2019 19:96

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  13. Content type: Research article

    Standard evolutionary theories of aging postulate that reduced extrinsic mortality leads to evolution of longevity. Clownfishes of the genus Amphiprion live in a symbiotic relationship with sea anemones that p...

    Authors: Arne Sahm, Pedro Almaida-Pagán, Martin Bens, Mirko Mutalipassi, Alejandro Lucas-Sánchez, Jorge de Costa Ruiz, Matthias Görlach and Alessandro Cellerino

    Citation: BMC Evolutionary Biology 2019 19:89

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  14. Content type: Research article

    Parasitic plants rely on their host to cover their nutritional requirements either for their entire life or a smaller part of it. Depending on the level of parasitism, a proportional reduction on the plastid g...

    Authors: Athanasios Zervas, Gitte Petersen and Ole Seberg

    Citation: BMC Evolutionary Biology 2019 19:87

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  15. Content type: Research article

    The genus Streptococcus comprises pathogens that strongly influence the health of humans and animals. Genome sequencing of multiple Streptococcus strains demonstrated high variability in gene content and order ev...

    Authors: Pavel V. Shelyakin, Olga O. Bochkareva, Anna A. Karan and Mikhail S. Gelfand

    Citation: BMC Evolutionary Biology 2019 19:83

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  16. Content type: Research article

    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, transcripti...

    Authors: Nicholas L. Panchy, Christina B. Azodi, Eamon F. Winship, Ronan C. O’Malley and Shin-Han Shiu

    Citation: BMC Evolutionary Biology 2019 19:77

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  17. Content type: Research article

    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...

    Authors: Suman Seemab, Nashaiman Pervaiz, Rabail Zehra, Saneela Anwar, Yiming Bao and Amir Ali Abbasi

    Citation: BMC Evolutionary Biology 2019 19:72

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  18. Content type: Research article

    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 dis...

    Authors: Matthias Thalmann, Mario Coiro, Tiago Meier, Thomas Wicker, Samuel C. Zeeman and Diana Santelia

    Citation: BMC Evolutionary Biology 2019 19:66

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  19. Content type: Research article

    The plastid is a semiautonomous organelle with its own genome. Plastid genomes have been widely used as models for studying phylogeny, speciation and adaptive evolution. However, most studies focus on comparis...

    Authors: Zhang-Hai Li, Xiao Ma, De-Yi Wang, Yun-Xia Li, Cheng-Wang Wang and Xiao-Hua Jin

    Citation: BMC Evolutionary Biology 2019 19:63

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  20. Content type: Research article

    The C-C motif chemokine ligand 16 (CCL16) is a potent pro-inflammatory chemokine and a chemoattractant for monocytes and lymphocytes. In normal plasma, it is present at high concentrations and elicits its effe...

    Authors: Fabiana Neves, Joana Abrantes, Ana M. Lopes, Luciana A. Fusinatto, Maria J. Magalhães, Wessel van der Loo and Pedro J. Esteves

    Citation: BMC Evolutionary Biology 2019 19:59

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  21. Content type: Research article

    Many physiological processes are influenced by nicotinic acetylcholine receptors (nAChR), ranging from neuromuscular and parasympathetic signaling to modulation of the reward system and long-term memory. Due t...

    Authors: Julia E. Pedersen, Christina A. Bergqvist and Dan Larhammar

    Citation: BMC Evolutionary Biology 2019 19:38

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  22. Content type: Research article

    Among the four bases, guanine is the most susceptible to damage from oxidative stress. Replication of DNA containing damaged guanines results in G to T mutations. Therefore, the mutations resulting from oxidat...

    Authors: Sidra Aslam, Xin-Ran Lan, Bo-Wen Zhang, Zheng-Lin Chen, Li Wang and Deng-Ke Niu

    Citation: BMC Evolutionary Biology 2019 19:35

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  23. Content type: Research article

    The plasminogen (PLG) activation system is composed by a series of serine proteases, inhibitors and several binding proteins, which together control the temporal and spatial generation of the active serine pro...

    Authors: Andrés Chana-Muñoz, Agnieszka Jendroszek, Malene Sønnichsen, Tobias Wang, Michael Ploug, Jan K. Jensen, Peter A. Andreasen, Christian Bendixen and Frank Panitz

    Citation: BMC Evolutionary Biology 2019 19:27

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  24. Content type: Research article

    ALRs (AIM2-like Receptors) are germline encoded PRRs that belong to PYHIN gene family of cytokines, which are having signature N-terminal PYD (Pyrin, PAAD or DAPIN) domain and C-terminal HIN-200 (hematopoietic, i...

    Authors: Sushil Kumar, Jatinder Singh Chera, Ashutosh Vats and Sachinandan De

    Citation: BMC Evolutionary Biology 2019 19:26

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  25. Content type: Research article

    The Synurophyceae is one of most important photosynthetic stramenopile algal lineages in freshwater ecosystems. They are characterized by siliceous scales covering the cell or colony surface and possess plasti...

    Authors: Jong Im Kim, Hyunmoon Shin, Pavel Škaloud, Jaehee Jung, Hwan Su Yoon, John M. Archibald and Woongghi Shin

    Citation: BMC Evolutionary Biology 2019 19:20

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  26. Content type: Research article

    Oligoadenylate synthetases (OASs) are widely distributed in Metazoa including sponges, fish, reptiles, birds and mammals and show large variation, with one to twelve members in any given species. Upon double-s...

    Authors: Jiaxiang Hu, Xiaoxue Wang, Yanling Xing, Enguang Rong, Mengfei Ning, Jacqueline Smith and Yinhua Huang

    Citation: BMC Evolutionary Biology 2018 18:201

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  27. Content type: Research article

    The family of D-isomer specific 2-hydroxyacid dehydrogenases (2HADHs) contains a wide range of oxidoreductases with various metabolic roles as well as biotechnological applications. Despite a vast amount of bi...

    Authors: Dorota Matelska, Ivan G. Shabalin, Jagoda Jabłońska, Marcin J. Domagalski, Jan Kutner, Krzysztof Ginalski and Wladek Minor

    Citation: BMC Evolutionary Biology 2018 18:199

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    The Correction to this article has been published in BMC Psychiatry 2019 19:221

  28. Content type: Research article

    Adaptation to local host plants may impact a pollinator’s population genetic structure by reducing gene flow and driving population genetic differentiation, representing an early stage of ecological speciation...

    Authors: Belinda Kahnt, Panagiotis Theodorou, Antonella Soro, Hilke Hollens-Kuhr, Michael Kuhlmann, Anton Pauw and Robert J. Paxton

    Citation: BMC Evolutionary Biology 2018 18:196

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  29. Content type: Research article

    The standard genetic code (SGC) is a unique set of rules which assign amino acids to codons. Similar amino acids tend to have similar codons indicating that the code evolved to minimize the costs of amino acid...

    Authors: Małgorzata Wnętrzak, Paweł Błażej, Dorota Mackiewicz and Paweł Mackiewicz

    Citation: BMC Evolutionary Biology 2018 18:192

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  30. Content type: Research article

    Osteoglycin (OGN, a.k.a. mimecan) belongs to cluster III of the small leucine-rich proteoglycans (SLRP) of the extracellular matrix (ECM). In vertebrates OGN is a characteristic ECM protein of bone. In the pre...

    Authors: R. A. Costa, R. S. T. Martins, E. Capilla, L. Anjos and D. M. Power

    Citation: BMC Evolutionary Biology 2018 18:191

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  31. Content type: Research article

    The ascomycete fungus Clonostachys rosea (order Hypocreales) can control several important plant diseases caused by plant pathogenic fungi and nematodes. Subtilisin-like serine proteases are considered to play an...

    Authors: Mudassir Iqbal, Mukesh Dubey, Mikael Gudmundsson, Maria Viketoft, Dan Funck Jensen and Magnus Karlsson

    Citation: BMC Evolutionary Biology 2018 18:171

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  32. Content type: Research article

    The degree by which mechanisms underlying phenotypic convergence are similar among taxa depends on the number of evolutionary paths available for selection to act upon. Likelihood of convergence will be influe...

    Authors: Milica Mandic, Marina L. Ramon, Aleeza C. Gerstein, Andrew Y. Gracey and Jeffrey G. Richards

    Citation: BMC Evolutionary Biology 2018 18:163

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  33. Content type: Research article

    Mitochondrial and plastid DNA fragments are continuously transferred into eukaryotic nuclear genomes, giving rise to nuclear copies of mitochondrial DNA (numts) and nuclear copies of plastid DNA (nupts). Numts...

    Authors: Shir Portugez, William F. Martin and Einat Hazkani-Covo

    Citation: BMC Evolutionary Biology 2018 18:162

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  34. Content type: Research article

    Provision of long-chain polyunsaturated fatty acids (LC-PUFA) in vertebrates occurs through the diet or via endogenous production from C18 precursors through consecutive elongations and desaturations. It has been...

    Authors: Mónica Lopes-Marques, Naoki Kabeya, Yu Qian, Raquel Ruivo, Miguel M. Santos, Byrappa Venkatesh, Douglas R. Tocher, L. Filipe C. Castro and Óscar Monroig

    Citation: BMC Evolutionary Biology 2018 18:157

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  35. Content type: Research article

    Members of the Bacillus genus have been isolated from a variety of environments. However, the relationship between potential metabolism and the niche from which bacteria of this genus have been isolated has not b...

    Authors: Ismael L. Hernández-González, Gabriel Moreno-Hagelsieb and Gabriela Olmedo-Álvarez

    Citation: BMC Evolutionary Biology 2018 18:148

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  36. Content type: Research article

    Confined within the freezing Southern Ocean, the Antarctic notothenioids have evolved to become both cold adapted and cold specialized. A marked signature of cold specialization is an apparent loss of the cell...

    Authors: Kevin T. Bilyk, Luis Vargas-Chacoff and C.-H.Christina Cheng

    Citation: BMC Evolutionary Biology 2018 18:143

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  37. Content type: Research article

    Disparity in the timing of biological events occurs across a variety of systems, yet the understanding of genetic basis underlying diverse phenologies remains limited. Variation in maturation timing occurs in ...

    Authors: Steven J. Micheletti, Jon E. Hess, Joseph S. Zendt and Shawn R. Narum

    Citation: BMC Evolutionary Biology 2018 18:140

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  38. Content type: Research article

    Phylogenetic relationships among Eastern Hemisphere cypresses, Western Hemisphere cypresses, junipers, and their closest relatives are controversial, and generic delimitations have been in flux for the past de...

    Authors: Andan Zhu, Weishu Fan, Robert P. Adams and Jeffrey P. Mower

    Citation: BMC Evolutionary Biology 2018 18:137

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2018 Journal Metrics

  • Citation Impact
    3.045 - 2-year Impact Factor
    3.559 - 5-year Impact Factor
    1.15 - Source Normalized Impact per Paper (SNIP)
    1.687 - SCImago Journal Rank (SJR)

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    1,734,004 downloads


    Social Media Impact
    3989 mentions

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