Relevant bibliographies by topics / Gene family expansions

Contents

  1. Journal articles
  2. Dissertations / Theses
  3. Books
  4. Book chapters
  5. Conference papers
  6. Reports

Academic literature on the topic 'Gene family expansions'

Author: Grafiati
Published: 3 June 2025
Last updated: 31 July 2025

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Journal articles on the topic "Gene family expansions"

1

Janoušek, Václav, Robert C. Karn, and Christina M. Laukaitis. "The role of retrotransposons in gene family expansions: insights from the mouse Abp gene family." BMC Evolutionary Biology 13, no. 1 (2013): 107. http://dx.doi.org/10.1186/1471-2148-13-107.

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Liebeskind, Benjamin J., David M. Hillis, and Harold H. Zakon. "Convergence of ion channel genome content in early animal evolution." Proceedings of the National Academy of Sciences 112, no. 8 (2015): E846—E851. http://dx.doi.org/10.1073/pnas.1501195112.

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Multicellularity has evolved multiple times, but animals are the only multicellular lineage with nervous systems. This fact implies that the origin of nervous systems was an unlikely event, yet recent comparisons among extant taxa suggest that animal nervous systems may have evolved multiple times independently. Here, we use ancestral gene content reconstruction to track the timing of gene family expansions for the major families of ion-channel proteins that drive nervous system function. We find that animals with nervous systems have broadly similar complements of ion-channel types but that t
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Chattopadhyay, Balaji, Kritika M. Garg, Rajasri Ray, Ian H. Mendenhall, and Frank E. Rheindt. "Novel de Novo Genome of Cynopterus brachyotis Reveals Evolutionarily Abrupt Shifts in Gene Family Composition across Fruit Bats." Genome Biology and Evolution 12, no. 4 (2020): 259–72. http://dx.doi.org/10.1093/gbe/evaa030.

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Abstract Major novel physiological or phenotypic adaptations often require accompanying modifications at the genic level. Conversely, the detection of considerable contractions and/or expansions of gene families can be an indicator of fundamental but unrecognized physiological change. We sequenced a novel fruit bat genome (Cynopterus brachyotis) and adopted a comparative approach to reconstruct the evolution of fruit bats, mapping contractions and expansions of gene families along their evolutionary history. Despite a radical change in life history as compared with other bats (e.g., loss of ec
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Ames, Ryan M., Daniel Money, and Simon C. Lovell. "Inferring Gene Family Histories in Yeast Identifies Lineage Specific Expansions." PLoS ONE 9, no. 6 (2014): e99480. http://dx.doi.org/10.1371/journal.pone.0099480.

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Chattopadhyay, Balaji, Kritika M. Garg, Rajasri Ray, Ian H. Mendenhall, Frank E. Rheindt, and Federico Hoffmann. "Novel de Novo Genome of Cynopterus brachyotis Reveals Evolutionarily Abrupt Shifts in Gene Family Composition across Fruit Bats." Genome Biology and Evolution 12, no. 4 (2020): 259–72. https://doi.org/10.5281/zenodo.13471722.

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(Uploaded by Plazi for the Bat Literature Project) Major novel physiological or phenotypic adaptations often require accompanying modifications at the genic level. Conversely, the detection of considerable contractions and/or expansions of gene families can be an indicator of fundamental but unrecognized physiological change. We sequenced a novel fruit bat genome (Cynopterus brachyotis) and adopted a comparative approach to reconstruct the evolution of fruit bats, mapping contractions and expansions of gene families along their evolutionary history. Despite a radical change in life history as
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Chattopadhyay, Balaji, Kritika M. Garg, Rajasri Ray, Ian H. Mendenhall, Frank E. Rheindt, and Federico Hoffmann. "Novel de Novo Genome of Cynopterus brachyotis Reveals Evolutionarily Abrupt Shifts in Gene Family Composition across Fruit Bats." Genome Biology and Evolution 12, no. 4 (2020): 259–72. https://doi.org/10.5281/zenodo.13471722.

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(Uploaded by Plazi for the Bat Literature Project) Major novel physiological or phenotypic adaptations often require accompanying modifications at the genic level. Conversely, the detection of considerable contractions and/or expansions of gene families can be an indicator of fundamental but unrecognized physiological change. We sequenced a novel fruit bat genome (Cynopterus brachyotis) and adopted a comparative approach to reconstruct the evolution of fruit bats, mapping contractions and expansions of gene families along their evolutionary history. Despite a radical change in life history as
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7

Chattopadhyay, Balaji, Kritika M. Garg, Rajasri Ray, Ian H. Mendenhall, Frank E. Rheindt, and Federico Hoffmann. "Novel de Novo Genome of Cynopterus brachyotis Reveals Evolutionarily Abrupt Shifts in Gene Family Composition across Fruit Bats." Genome Biology and Evolution 12, no. 4 (2020): 259–72. https://doi.org/10.5281/zenodo.13471722.

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(Uploaded by Plazi for the Bat Literature Project) Major novel physiological or phenotypic adaptations often require accompanying modifications at the genic level. Conversely, the detection of considerable contractions and/or expansions of gene families can be an indicator of fundamental but unrecognized physiological change. We sequenced a novel fruit bat genome (Cynopterus brachyotis) and adopted a comparative approach to reconstruct the evolution of fruit bats, mapping contractions and expansions of gene families along their evolutionary history. Despite a radical change in life history as
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8

Chattopadhyay, Balaji, Kritika M. Garg, Rajasri Ray, Ian H. Mendenhall, Frank E. Rheindt, and Federico Hoffmann. "Novel de Novo Genome of Cynopterus brachyotis Reveals Evolutionarily Abrupt Shifts in Gene Family Composition across Fruit Bats." Genome Biology and Evolution 12, no. 4 (2020): 259–72. https://doi.org/10.5281/zenodo.13471722.

Full text
Abstract:
(Uploaded by Plazi for the Bat Literature Project) Major novel physiological or phenotypic adaptations often require accompanying modifications at the genic level. Conversely, the detection of considerable contractions and/or expansions of gene families can be an indicator of fundamental but unrecognized physiological change. We sequenced a novel fruit bat genome (Cynopterus brachyotis) and adopted a comparative approach to reconstruct the evolution of fruit bats, mapping contractions and expansions of gene families along their evolutionary history. Despite a radical change in life history as
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9

Chattopadhyay, Balaji, Kritika M. Garg, Rajasri Ray, Ian H. Mendenhall, Frank E. Rheindt, and Federico Hoffmann. "Novel de Novo Genome of Cynopterus brachyotis Reveals Evolutionarily Abrupt Shifts in Gene Family Composition across Fruit Bats." Genome Biology and Evolution 12, no. 4 (2020): 259–72. https://doi.org/10.5281/zenodo.13471722.

Full text
Abstract:
(Uploaded by Plazi for the Bat Literature Project) Major novel physiological or phenotypic adaptations often require accompanying modifications at the genic level. Conversely, the detection of considerable contractions and/or expansions of gene families can be an indicator of fundamental but unrecognized physiological change. We sequenced a novel fruit bat genome (Cynopterus brachyotis) and adopted a comparative approach to reconstruct the evolution of fruit bats, mapping contractions and expansions of gene families along their evolutionary history. Despite a radical change in life history as
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10

Que, Feng, Qingnan Liu, Ruofei Zha, Aisheng Xiong, and Qiang Wei. "Genome-Wide Identification, Expansion, and Evolution Analysis of Homeobox Gene Family Reveals TALE Genes Important for Secondary Cell Wall Biosynthesis in Moso Bamboo (Phyllostachys edulis)." International Journal of Molecular Sciences 23, no. 8 (2022): 4112. http://dx.doi.org/10.3390/ijms23084112.

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The TALE gene family is a subfamily of the homeobox gene family and has been implicated in regulating plant secondary growth. However, reports about the evolutionary history and function of the TALE gene family in bamboo are limited. Here, the homeobox gene families of moso bamboo Olyra latifolia and Bonia amplexicaulis were identified and compared. Many duplication events and obvious expansions were found in the TALE family of woody bamboo. PhTALEs were found to have high syntenies with TALE genes in rice. Through gene co-expression analysis and quantitative real-time PCR analysis, the candid
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Dissertations / Theses on the topic "Gene family expansions"

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Janousek, Vaclav, Robert Karn, and Christina Laukaitis. "The role of retrotransposons in gene family expansions: insights from the mouse Abp gene family." BioMed Central, 2013. http://hdl.handle.net/10150/610385.

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BACKGROUND:Retrotransposons have been suggested to provide a substrate for non-allelic homologous recombination (NAHR) and thereby promote gene family expansion. Their precise role, however, is controversial. Here we ask whether retrotransposons contributed to the recent expansions of the Androgen-binding protein (Abp) gene families that occurred independently in the mouse and rat genomes.RESULTS:Using dot plot analysis, we found that the most recent duplication in the Abp region of the mouse genome is flanked by L1Md_T elements. Analysis of the sequence of these elements revealed breakpoints
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Janoušek, Václav, Christina M. Laukaitis, Alexey Yanchukov, and Robert C. Karn. "The Role of Retrotransposons in Gene Family Expansions in the Human and Mouse Genomes." OXFORD UNIV PRESS, 2016. http://hdl.handle.net/10150/621594.

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Retrotransposons comprise a large portion of mammalian genomes. They contribute to structural changes and more importantly to gene regulation. The expansion and diversification of gene families have been implicated as sources of evolutionary novelties. Given the roles retrotransposons play in genomes, their contribution to the evolution of gene families warrants further exploration. In this study, we found a significant association between two major retrotransposon classes, LINEs and LTRs, and lineage-specific gene family expansions in both the human and mouse genomes. The distribution and div
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Tunnacliffe, Edward Alan John. "Gene expression dynamics underlying diversification and expansion of an actin gene family." Thesis, University College London (University of London), 2018. http://discovery.ucl.ac.uk/10041510/.

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During the evolution of gene families, functional diversification of proteins often follows gene duplication. However, some gene families expand while preserving protein sequence. Why would a cell need to maintain multiple copies of the same gene? In this thesis I have addressed this question for an actin gene family containing 17 genes encoding an identical protein in the social amoeba Dictyostelium discoideum. Using bioinformatics I identified several highly conserved sequence elements as potential regulatory motifs, yet found that gene expression patterns during development are broadly simi
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Ongaro, Verónica. "Characterization of the expansin gene family during fruit development in Arabidopsis thaliana." Thesis, University of York, 2003. http://ethos.bl.uk/OrderDetails.do?uin=uk.bl.ethos.411470.

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Bosch, Pages Nina. "Duplicacions segmentàries a la regió cromosòmica humana 8P23.1: evolució i expansió d'una nova família gènica." Doctoral thesis, Universitat Pompeu Fabra, 2008. http://www.tdx.cat/TDX-0521109-141419.

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Les duplicacions segmentàries (DSs), o també anomenades duplicons o Low copy Repeats (LCRs), són regions de coma mínim 1 kb amb un alt nivell d'identitat (>90%), que estan presents almenys dues vegades en el genoma. La regió 8p23.1 consta de 6.5 Mb a la part distal del braç curt del cromosoma 8 i està flanquejada per duplicacions segmentàries. Degut a la seva arquitectura genòmica aquesta regió és susceptible a patir reordenaments mediats per recombinació homòloga no al·lèlica entre les DSs, com per exemple la inversió polimòrfica de 8p23.1 [inv(8)(p23)], present en un de cada quatre individus
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Chen, Wei-Chien, and 陳韋芊. "Molecular evolution of expansine gene family in thirteen plant species." Thesis, 2012. http://ndltd.ncl.edu.tw/handle/j3pf5e.

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碩士<br>國立中興大學<br>農藝學系所<br>100<br>The phylogeny was the evolution of species and taxonomic grouping in an organism by using bioinformation. The ribosome DNA, chloroplast DNA and low-copy nuclear genes were used in phylogeny analysis, because their sequence divergences were slow. A new method that using multiple copies of nuclear genes could improve the robustness of phylogenic reconstruction. The expansin gene families were used in this study. There were three sub gene families in expansin gene which was partaking in plant development. The orthologous genes which show the highest similarity wit
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Mukendi, Christian Kabasele. "The expansion and diversification of the claudin gene family: insight from the lamprey." Thesis, 2015. http://hdl.handle.net/10539/18530.

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Dissertation submitted to the Faculty of Science, University of the Witswatersrand, Johannesburg, in fulfilment of the requirements for the degree of Master of Science. May 2015 in Johannesburg<br>Claudins are a large gene family found in all vertebrates. Claudins encode tetraspan membrane proteins, involved in the structure and function of the tight junctions. This association of cells leads to the formation of the epithelial sheet which is involved in many functions such as embryo morphogenesis. The NCBI database shows 27 claudins identified in humans; 23 in mice and 17 in Xenopus. This sug
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Books on the topic "Gene family expansions"

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Noebels, Jeffrey L., Massimo Avoli, Michael A. Rogawski, Annamaria Vezzani, and Antonio V. Delgado-Escueta, eds. Jasper's Basic Mechanisms of the Epilepsies. 5th ed. Oxford University PressNew York, 2024. http://dx.doi.org/10.1093/med/9780197549469.001.0001.

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Abstract Unverricht-Lundborg disease (ULD; EPM1) is an inherited neurodegenerative disorder characterized by onset at 6–15 years, stimulus-sensitive, action-activated myoclonus, epilepsy, and progressive neurological deterioration. It is caused by biallelic pathogenic variants in the CSTB gene, encoding a cystatin B. The most common of these is an unstable expansion of a dodecamer repeat element in the promoter region of the gene, leading to marked downregulation of CSTB expression. Total loss of CSTB is associated with severe neonatal-onset encephalopathy. A cystatin B–deficient mouse models
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Book chapters on the topic "Gene family expansions"

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Ollivier, Morgane, and Claude Rispe. "Evolutionary Dynamics in the Aphid Genome: Search for Genes Under Positive Selection and Detection of Gene Family Expansions." In Evolutionary Biology – Concepts, Molecular and Morphological Evolution. Springer Berlin Heidelberg, 2010. http://dx.doi.org/10.1007/978-3-642-12340-5_8.

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Fayet, Olivier, and Marie-Françoise Prère. "Programmed Ribosomal −1 Frameshifting as a Tradition: The Bacterial Transposable Elements of the IS3 Family." In Recoding: Expansion of Decoding Rules Enriches Gene Expression. Springer New York, 2009. http://dx.doi.org/10.1007/978-0-387-89382-2_12.

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Tran, Vinh Thanh, Chuc Thi Dao, Trinh Truong Phung, et al. "Investigation of the Expansion, Categorization and Gene Structure of the YABBY Gene Family in Cassava (Manihot Esculenta) by Using a Bioinformatics Approach." In Lecture Notes in Networks and Systems. Springer Nature Switzerland, 2025. https://doi.org/10.1007/978-3-031-80943-9_80.

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Mastrangelo, Mario. "Clinical Approaches to Genetic Epilepsies in Children." In Updates on Pediatric Health and Diseases. BENTHAM SCIENCE PUBLISHERS, 2023. http://dx.doi.org/10.2174/9789815124187123020009.

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A genetic etiology is determined in more than 30% of all diagnosed cases of epilepsy with onset at the pediatric age. About 210 single disease-causing genes and 400 chromosomal imbalances are associated with epilepsy, and a presumed pathogenic role has been suggested for about 7000 different genes. Genetic epilepsies can be divided, according to the main correlated epileptogenic mechanisms, into the following groups: a) channelopathies, b) transportopathies, c) disorders of the intermediate metabolism, d) disorders of the neuronal cellular cycle and signaling, e) disorders of synaptic vesicles
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Yue, Ziming, Varsha Singh, Josiane Argenta, Worlanyo Segbefia, Alyssa Miller, and Te Ming Tseng. "Use of Plant Secondary Metabolites to Reduce Crop Biotic and Abiotic Stresses: A Review." In Secondary Metabolites - Trends and Reviews [Working Title]. IntechOpen, 2022. http://dx.doi.org/10.5772/intechopen.104553.

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Plant secondary metabolites (PSM) are small molecules of organic compounds produced in plant metabolism that have various ecological functions, such as defense against pathogens, herbivores, and neighboring plants. They can also help to reduce abiotic stresses, such as drought, salinity, temperature, and UV. This chapter reviewed the ecological functions of the PSM and how people utilize these metabolites to reduce crop biotic and abiotic stresses in agriculture. Specific topics covered in this review are (1) extraction of PSM from plant parts and its application on crops; (2) screening of cro
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Ingram, Neil, Sylvia Hixson Andrews, and Jane Still. "Human Evolution: Where Do We Come From and How Did We Get Here?" In Evolution. Oxford University Press, 2021. http://dx.doi.org/10.1093/hesc/9780198862574.003.0005.

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This chapter examines the theory of human evolution. The forces of evolution (such as gene flow and natural selection) serve as a mould for the human species through time, thus research on human evolution is constrained by ancestral animals. The chapter examines animals such as primates and argues that they are the possible evolution ancestor of humans. The chapter also looks at human characteristics such as bipedalism, facial morphology, dentition, and brain expansion. It notes that Hominini, whose fossils were found in Africa, are the earliest members of the human family on record. DNA has h
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Bowern, Claire, Bastien Llamas, Luisa Miceli, Raymond Tobler, and Peter Veth. "Australian archaeolinguistics." In The Oxford Handbook of Archaeology and Language. Oxford University Press, 2025. https://doi.org/10.1093/oxfordhb/9780192868350.013.27.

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Abstract This chapter discusses the linguistic, genetic, and archaeological stories of the Indigenous peoples of the area now known as Australia (the southern portion of Sahul). When attempting to synthesize information from genetics, archaeology, and language for the deep past of Sahul, we are confronted with several seeming contradictions. On the one hand, the picture from genetics emphasizes continuity: rapid and early expansion (above 40,000 years ago), followed by fairly stable regionalism and some subsequent gene flow. The linguistic picture, however, appears to show a heavy disjunction,
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Tegelberg, Saara, Tarja Joensuu, and Anna-Elina Lehesjoki. "Progressive Myoclonus Epilepsy." In Jasper's Basic Mechanisms of the Epilepsies, 5th ed., edited by Antonio V. Delgado-Escueta, José M. Serratosa, and Berge A. Minassian. Oxford University PressNew York, 2024. http://dx.doi.org/10.1093/med/9780197549469.003.0051.

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Abstract Unverricht-Lundborg disease (ULD; EPM1) is an inherited neurodegenerative disorder characterized by onset at 6–15 years, stimulus-sensitive, action-activated myoclonus, epilepsy, and progressive neurological deterioration. It is caused by biallelic pathogenic variants in the CSTB gene, encoding a cystatin B. The most common of these is an unstable expansion of a dodecamer repeat element in the promoter region of the gene, leading to marked downregulation of CSTB expression. Total loss of CSTB is associated with severe neonatal-onset encephalopathy. A cystatin B–deficient mouse models
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Zhang, Yuhua, Melvin G. McInnis, and Sebastian Zöllner. "Genetic techniques and applications to bipolar disorder." In The Bipolar Brain. Oxford University Press, 2022. http://dx.doi.org/10.1093/med/9780197574522.003.0010.

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The methods and technologies behind the analyses of genetic data and information have advanced considerably since the identification and expansion of DNA sequence-based markers, genotypes, that map the human genome. The capacity for generating large numbers of genotypes have provided a base for developing innovative methods of analysis. The approach has shifted from family-based linkage analyses to population-based association analyses and emerging results have opened new directions for inquiry. In disorders with non-Mendelian inheritance, tens to hundreds of susceptibility loci have been iden
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Lampert, Sara E. "Between Stock and Star." In Starring Women. University of Illinois Press, 2020. http://dx.doi.org/10.5622/illinois/9780252043352.003.0002.

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This chapter charts the growth and expansion of theater and starring in the Northeast and mid-Atlantic regions in the United States from 1790 to 1830, showing the terms by which English actresses began to explore the opportunities of the American market by participating in the emerging transatlantic starring system and the growth of U.S. theater. Starring was gendered by genre in ways that obscure the significance of enterprising women. But unlike men, women were rarely able to operate as if they were independent agents. The starring careers of Anne Brunton Merry, Agnes Holman, Lydia Kelly, Cl
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Conference papers on the topic "Gene family expansions"

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Athayde, Natália Merten, Wladimir Bocca Vieira de Rezende Pinto, Paulo Victor Sgobbi de Souza, Acary Souza Bulle Oliveira, and Alzira Alves de Siqueira Carvalho. "Expansion of the phenotype in ALS19." In XIII Congresso Paulista de Neurologia. Zeppelini Editorial e Comunicação, 2021. http://dx.doi.org/10.5327/1516-3180.455.

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Context: Amyotrophic lateral sclerosis (ALS) is a progressive neurodegenerative disease that affects the upper and lower motor neurons. Most cases are sporadic, being 5-10% familial. Currently, more than 20 genes are described as causing familial ALS, with C9ORF72 and SOD1 the most common. Case report: Woman, 42 years old, with progressive weakness in her left foot for 3 years evolving with difficulty walking. No family history. Neurological exam(NE): asymmetric stepagge gait. Asymmetric proximal, distal and axial muscle weakness and distal atrophy. Hyperactive reflexes. EMG: pre-ganglionic le
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Nakano, Bruno Eiji, Gabriel Flamarin Cavasana, Paula Carolina Grande Nakazato, et al. "Huntington Disease-Like 2: a case report." In XIV Congresso Paulista de Neurologia. Zeppelini Editorial e Comunicação, 2023. http://dx.doi.org/10.5327/1516-3180.141s1.494.

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Case presentation: Male, 56-year-old, previously epileptic started with involuntary movements in the right hand at 47 years old evolving to torso, incoordination, behavioral and cognition disturbs. Paternal grandmother, father and cousin with similar symptoms, in addition to four asymptomatic children. From the onset of symptoms, it progressively worsened presenting involuntary movements, hallucinations, aggressiveness and neck drop. During the neurological examination had frequent cervical falls, tremors at rest in the limbs, and mood swings. Cranial magnetic resonance imaging (MRI) was with
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Reports on the topic "Gene family expansions"

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Barg, Rivka, Erich Grotewold, and Yechiam Salts. Regulation of Tomato Fruit Development by Interacting MYB Proteins. United States Department of Agriculture, 2012. http://dx.doi.org/10.32747/2012.7592647.bard.

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Background to the topic: Early tomato fruit development is executed via extensive cell divisions followed by cell expansion concomitantly with endoreduplication. The signals involved in activating the different modes of growth during fruit development are still inadequately understood. Addressing this developmental process, we identified SlFSM1 as a gene expressed specifically during the cell-division dependent stages of fruit development. SlFSM1 is the founder of a class of small plant specific proteins containing a divergent SANT/MYB domain (Barg et al 2005). Before initiating this project,
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Sherman, Amir, Rebecca Grumet, Ron Ophir, Nurit Katzir, and Yiqun Weng. Whole genome approach for genetic analysis in cucumber: Fruit size as a test case. United States Department of Agriculture, 2013. http://dx.doi.org/10.32747/2013.7594399.bard.

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The Cucurbitaceae family includes a broad array of economically and nutritionally important crop species that are consumed as vegetables, staple starches and desserts. Fruit of these species, and types within species, exhibit extensive diversity as evidenced by variation in size, shape, color, flavor, and others. Fruit size and shape are critical quality determinants that delineate uses and market classes and are key traits under selection in breeding programs. However, the underlying genetic bases for variation in fruit size remain to be determined. A few species the Cucurbitaceae family were
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