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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. Various apolipoproteins widely distributed among vertebrata play key roles in lipid metabolism and have a direct correlation with human diseases as diagnostic markers. However, the evolutionary progress of apo...

    Authors: Jia-Qian Liu, Wen-Xing Li, Jun-Juan Zheng, Qing-Nan Tian, Jing-Fei Huang and Shao-Xing Dai

    Citation: BMC Evolutionary Biology 2019 19:209

    Content type: Research article

    Published on:

  2. The BLOC1S2 gene encodes the multifunctional protein BLOS2, a shared subunit of two lysosomal trafficking complexes: i) biogenesis of lysosome-related organelles complex-1 and i) BLOC-1-related complex. In our pr...

    Authors: Hyeon-Mu Cho, Sang-Je Park, Se-Hee Choe, Ja-Rang Lee, Sun-Uk Kim, Yeung-Bae Jin, Ji-Su Kim, Sang-Rae Lee, Young-Hyun Kim and Jae-Won Huh

    Citation: BMC Evolutionary Biology 2019 19:196

    Content type: Research article

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  3. The transition from land to sea by the ancestor of cetaceans approximately 50 million years ago was an incredible evolutionary event that led to a series of morphological, physiological, and behavioral adaptat...

    Authors: Di Sun, Xuming Zhou, Zhenpeng Yu, Shixia Xu, Inge Seim and Guang Yang

    Citation: BMC Evolutionary Biology 2019 19:194

    Content type: Research article

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  4. Blumeria graminis f. sp. tritici (Bgt), the causal agent of wheat powdery mildew severely affects yield security wheat production in China. Understanding the virulence structure and genetic variations of this pat...

    Authors: Xian Xin Wu, Xiao Feng Xu, De Xin Ma, Rong Zhen Chen, Tian Ya Li and Yuan Yin Cao

    Citation: BMC Evolutionary Biology 2019 19:183

    Content type: Research article

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  5. Satellites or tandem repeats are very abundant in many eukaryotic genomes. Occasionally they have been reported to be present in some prokaryotes, but to our knowledge there is no general comparative study on ...

    Authors: Juan A. Subirana and Xavier Messeguer

    Citation: BMC Evolutionary Biology 2019 19:181

    Content type: Research article

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  6. Vomeronasal type 1 receptor genes (V1Rs) are expected to detect intraspecific pheromones. It is believed that rodents rely heavily on pheromonal communication mediated by V1Rs, but pheromonal signals are thought ...

    Authors: Hengwu Jiao, Wei Hong, Eviatar Nevo, Kexin Li and Huabin Zhao

    Citation: BMC Evolutionary Biology 2019 19:176

    Content type: Research article

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  7. A number of non-visual responses to light in vertebrates, such as circadian rhythm control and pupillary light reflex, are mediated by melanopsins, G-protein coupled membrane receptors, conjugated to a retinal...

    Authors: Einat Hauzman, Venkatasushma Kalava, Daniela Maria Oliveira Bonci and Dora Fix Ventura

    Citation: BMC Evolutionary Biology 2019 19:174

    Content type: Research article

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  8. In the absence of sex and recombination, genomes are expected to accumulate deleterious mutations via an irreversible process known as Muller’s ratchet, especially in the case of polyploidy. In contrast, no ge...

    Authors: Ladislav Hodač, Simone Klatt, Diego Hojsgaard, Timothy F. Sharbel and Elvira Hörandl

    Citation: BMC Evolutionary Biology 2019 19:170

    Content type: Research article

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  9. Two spliceosomal intron types co-exist in eukaryotic precursor mRNAs and are excised by distinct U2-dependent and U12-dependent spliceosomes. In the diplomonad Giardia lamblia, small nuclear (sn) RNAs show hybrid...

    Authors: Andrew J. Hudson, David C. McWatters, Bradley A. Bowser, Ashley N. Moore, Graham E. Larue, Scott W. Roy and Anthony G. Russell

    Citation: BMC Evolutionary Biology 2019 19:162

    Content type: Research article

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  10. The evolution of complex organs is thought to occur via a stepwise process, each subsequent step increasing the organ’s complexity by a tiny amount. This evolutionary process can be studied by comparing closel...

    Authors: Henri van Kruistum, Joost van den Heuvel, Joseph Travis, Ken Kraaijeveld, Bas J. Zwaan, Martien A. M. Groenen, Hendrik-Jan Megens and Bart J. A. Pollux

    Citation: BMC Evolutionary Biology 2019 19:156

    Content type: Research article

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  11. Adenosine deaminase enzymes of the ADAR family are conserved in metazoans. They convert adenine into inosine in dsRNAs and thus alter both structural properties and the coding potential of their substrates. Ac...

    Authors: Umberto Rosani, Chang-Ming Bai, Lorenzo Maso, Maxwell Shapiro, Miriam Abbadi, Stefania Domeneghetti, Chong-Ming Wang, Laura Cendron, Thomas MacCarthy and Paola Venier

    Citation: BMC Evolutionary Biology 2019 19:149

    Content type: Research article

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  12. Antioxidative enzymes contribute to a parasite’s ability to counteract the host’s intracellular killing mechanisms. The facultative intracellular oyster parasite, Perkinsus marinus, a sister taxon to dinoflagella...

    Authors: Eric J. Schott, Santiago Di Lella, Tsvetan R. Bachvaroff, L. Mario Amzel and Gerardo R. Vasta

    Citation: BMC Evolutionary Biology 2019 19:146

    Content type: Research article

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  13. 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

    Content type: Research article

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  14. 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

    Content type: Research article

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  15. 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

    Content type: Research article

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  16. 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

    Content type: Methodology article

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  17. 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

    Content type: Research article

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  18. 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

    Content type: Research article

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  19. 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

    Content type: Research article

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  20. 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

    Content type: Research article

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  21. 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

    Content type: Research article

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  22. 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

    Content type: Research article

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  23. 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

    Content type: Research article

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  24. 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

    Content type: Research article

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  25. 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

    Content type: Research article

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  26. 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

    Content type: Research article

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  27. 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

    Content type: Research article

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  28. 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

    Content type: Research article

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  29. 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

    Content type: Research article

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  30. 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

    Content type: Research article

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  31. 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

    Content type: Research article

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  32. 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

    Content type: Research article

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  33. 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

    Content type: Research article

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  34. 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

    Content type: Research article

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  35. 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

    Content type: Research article

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  36. 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

    Content type: Research article

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  37. 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

    Content type: Research article

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  38. 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

    Content type: Research article

    Published on:

  39. 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

    Content type: Research article

    Published on:

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

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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