Remarkable Interkingdom Conservation of Intron Positions and Massive, Lineage-Specific Intron Loss and Gain in Eukaryotic Evolution

The COG database: an updated version includes eukaryotes

Tatusov, R. L., Fedorova, N. D., Jackson, J. D., Jacobs, A. R., Kiryutin, B., Koonin, E. V., Krylov, D. M., Mazumder, R., Mekhedov, S., Nikolskaya, A. N., et al. (2003) · BMC Bioinformatics · doi:10.1186/1471-2105-4-41 · Cited by 4,470

Genome sequence of the human malaria parasite Plasmodium falciparum

Gardner, M. J., Hall, N., Fung, E., White, O., Berriman, M., Hyman, R. W., Carlton, J. M., Pain, A., Nelson, K. E., Bowman, S., et al. (2002) · Nature · doi:10.1038/nature01097 · Cited by 4,407

A genomic perspective on protein families.

Tatusov, R., Koonin, E., & Lipman, D. (1997) · Science · doi:10.1126/science.278.5338.631 · Cited by 3,777

Evidence for a clade of nematodes, arthropods and other moulting animals

Aguinaldo, A. M. A., Turbeville, J. M., Linford, L. S., Rivera, M. C., Garey, J. R., Raff, R. A., & Lake, J. A. (1997) · Nature · doi:10.1038/387489a0 · Cited by 1,609

A kingdom-level phylogeny of eukaryotes based on combined protein data.

Baldauf, S., Roger, A., Wenk-Siefert, I., & Doolittle, W. (2000) · Science · doi:10.1126/science.290.5493.972 · Cited by 1,243

The origin and evolution of model organisms

Hedges, S. B. (2002) · Nature Reviews Genetics · doi:10.1038/nrg929 · Cited by 806

The Exon Theory of GenesPreprint

Gilbert, W. (1987) · Cold Spring Harbor Symposia on Quantitative Biology · doi:10.1101/sqb.1987.052.01.098 · Cited by 393

The recent origins of spliceosomal introns revisited

Logsdon, J. M., Jr. (1998) · Current Opinion in Genetics & Development · doi:10.1016/s0959-437x(98)80031-2 · Cited by 205

Selfish DNA and the origin of introns

Cavalier‐Smith, T. (1985) · Nature · doi:10.1038/315283b0 · Cited by 203

Large-scale comparison of intron positions among animal, plant, and fungal genes

Fedorov, A. N., Merican, A. F., & Gilbert, W. (2002) · Proceedings of the National Academy of Sciences · doi:10.1073/pnas.242624899 · Cited by 192

Exon size distribution and the origin of introns

Gudlaugsdottir, S., Boswell, D. R., Wood, G. R., & Ma, J. (2007) · Genetica · doi:10.1007/s10709-007-9139-4 · Cited by 31

Evidence that human genes of modular proteins have retained significantly more ancestral introns than their fly or worm orthologues

Bányai, L., & Patthy, L. (2004) · FEBS Letters · doi:10.1016/j.febslet.2004.03.088 · Cited by 29

Phylogenetic analysis of upland cotton MATE gene family reveals a conserved subfamily involved in transport of proanthocyanidins

Xu, L., Shen, Z., Chen, W., Si, G.-Y., Meng, Y., Guo, N., Sun, X., Cai, Y., Lin, Y., & Gao, J. (2018) · Molecular Biology Reports · doi:10.1007/s11033-018-4457-4 · Cited by 28

Evolution of spliceosomal introns following endosymbiotic gene transfer

Brocke‐Ahmadinejad, N., Dagan, T., Gruenheit, N., Martin, W. F., & Gabaldón, T. (2010) · BMC Evolutionary Biology · doi:10.1186/1471-2148-10-57 · Cited by 29

Identification of introns harboring functional sequence elements through positional conservation

Chorev, M., Bekker, A. J., Goldberger, J., & Carmel, L. (2017) · Scientific Reports · doi:10.1038/s41598-017-04476-0 · Cited by 28

GenePainter: a fast tool for aligning gene structures of eukaryotic protein families, visualizing the alignments and mapping gene structures onto protein structures

Hammesfahr, B., Odronitz, F., Mühlhausen, S., Waack, S., & Kollmar, M. (2013) · BMC Bioinformatics · doi:10.1186/1471-2105-14-77 · Cited by 27

Internal and External Paralogy in the Evolution of Tropomyosin Genes in Metazoans

Irimia, M., Maeso, I., Gunning, P. W., García‐Fernàndez, J., & Roy, S. W. (2010) · Molecular Biology and Evolution · doi:10.1093/molbev/msq018 · Cited by 27

Structure and Evolution of Tropomyosin Genes

Vrhovski, B., Thézé, N., & Thiébaud, P. (2008) · Advances in experimental medicine and biology · doi:10.1007/978-0-387-85766-4_2 · Cited by 27

Complex selection on 5′ splice sites in intron-rich organismsPreprint

Irimia, M., Roy, S. W., Neafsey, D. E., Abril, J. F., García‐Fernàndez, J., & Koonin, E. V. (2009) · Genome Research · doi:10.1101/gr.089276.108 · Cited by 27

Genome-wide identification and characterization of the HSP gene superfamily in apple snails (Gastropoda: Ampullariidae) and expression analysis under temperature stress

Gao, Y., Li, J.-N., Pu, J.-J., Tao, K.-X., Zhao, X., & Yang, Q. (2022) · International Journal of Biological Macromolecules · doi:10.1016/j.ijbiomac.2022.10.038 · Cited by 26

Genome-wide characterization of SOS1 gene family in potato (Solanum tuberosum) and expression analyses under salt and hormone stress

Liang, L., Guo, L., Zhai, Y., Hou, Z., Wu, W., Zhang, X., Wu, Y., Liu, X., Guo, S., Gao, G., et al. (2023) · Frontiers in Plant Science · doi:10.3389/fpls.2023.1201730 · Cited by 26

Ancient and Recent Duplications Support Functional Diversity of Daphnia Opsins

Brandon, C. S., Greenwold, M. J., & Dudycha, J. L. (2016) · Journal of Molecular Evolution · doi:10.1007/s00239-016-9777-1 · Cited by 26

Expression, function and regulation of Brachyenteron in the short germband insect Tribolium castaneum

Berns, N., Kusch, T., Schröder, R., & Reuter, R. (2008) · Development Genes and Evolution · doi:10.1007/s00427-008-0210-7 · Cited by 26

Computational identification of functional introns: high positional conservation of introns that harbor RNA genes

Chorev, M., & Carmel, L. (2013) · Nucleic Acids Research · doi:10.1093/nar/gkt244 · Cited by 25

Phylogenetic Distribution of Intron Positions in Alpha-Amylase Genes of Bilateria Suggests Numerous Gains and Losses

Lage, J. D., Maczkowiak, F., & Cariou, M. L. (2011) · PLoS ONE · doi:10.1371/journal.pone.0019673 · Cited by 25

Subspecies-specific intron length polymorphism markers reveal clear genetic differentiation in common wild rice (Oryza rufipogon L.) in relation to the domestication of cultivated rice (O. sativa L.)

Zhao, X., Yang, L., Zheng, Y., Xu, Z., & Wu, W. (2009) · Journal of genetics and genomics/Journal of Genetics and Genomics · doi:10.1016/s1673-8527(08)60133-2 · Cited by 25

Genome-wide identification of Gossypium INDETERMINATE DOMAIN genes and their expression profiles in ovule development and abiotic stress responses

Ali, F., Qanmber, G., Li, Y., Ma, S., Lu, L., Yang, Z., Wang, Z., & Li, F. (2019) · Journal of Cotton Research · doi:10.1186/s42397-019-0021-6 · Cited by 24

Patterns of conservation of spliceosomal intron structures and spliceosome divergence in representatives of the diplomonad and parabasalid lineages

Hudson, A. J., McWatters, D. C., Bowser, B. A., Moore, A. N., Larue, G. E., Roy, S. W., & Russell, A. G. (2019) · BMC Evolutionary Biology · doi:10.1186/s12862-019-1488-y · Cited by 24

An Important Connection Between Network Motifs and Parsimony Models

Przytycka, T. M. (2006) · Lecture notes in computer science · doi:10.1007/11732990_27 · Cited by 24

Insertion of spliceosomal introns in proto‐splice sites: the case of secretory signal peptides

Tordai, H., & Patthy, L. (2004) · FEBS Letters · doi:10.1016/j.febslet.2004.08.045 · Cited by 24

The Spliceosome and Its Metal Ions

Butcher, S. E. (2011) · Royal Society of Chemistry eBooks · doi:10.1039/9781849732512-00235 · Cited by 23

Intronization, de-intronization and intron sliding are rare in Cryptococcus

Roy, S. W. (2009) · BMC Evolutionary Biology · doi:10.1186/1471-2148-9-192 · Cited by 25

Characterization of Newly Gained Introns in Daphnia Populations

Li, W., Kuzoff, R. K., Wong, C. K., Tucker, A. E., & Lynch, M. (2014) · Genome Biology and Evolution · doi:10.1093/gbe/evu174 · Cited by 22

Identification and expression analysis of YABBY family genes in Platycodon grandiflorus

Kong, L., Sun, J., Jiang, Z., Ren, W., Wang, Z., Zhang, M., Liu, X., Wang, L., Ma, W., & Xu, J. (2023) · Plant Signaling & Behavior · doi:10.1080/15592324.2022.2163069 · Cited by 22

Conserved intron positions in ancient protein modules.

Roos, A. D. G. D. (2007) · Biology Direct · doi:10.1186/1745-6150-2-7 · Cited by 22

Contrasting 5' and 3' Evolutionary Histories and Frequent Evolutionary Convergence in Meis/hth Gene Structures

Irimia, M., Maeso, I., Burguera, D., Hidalgo‐Sánchez, M., Puelles, L., Roy, S. W., García‐Fernàndez, J., & Ferrán, J. L. (2011) · Genome Biology and Evolution · doi:10.1093/gbe/evr056 · Cited by 22

Genome-Wide Identification and Analysis of Class III Peroxidases in Allotetraploid Cotton (Gossypium hirsutum L.) and their Responses to PK Deficiency

Duan, P., Guo, W., Chao, M., Zhang, Z., & Zhang, B. (2019) · Genes · doi:10.3390/genes10060473 · Cited by 21

Evolutionary Conservation of UTR Intron Boundaries in Cryptococcus

Roy, S. W., Penny, D., & Neafsey, D. E. (2007) · Molecular Biology and Evolution · doi:10.1093/molbev/msm045 · Cited by 21

Intron Dynamics in Ribosomal Protein Genes

Yoshihama, M., Nguyen, H. D., & Kenmochi, N. (2007) · PLoS ONE · doi:10.1371/journal.pone.0000141 · Cited by 21

A glimpse of a putative pre-intron phase of eukaryotic evolution

Sverdlov, A. V., Csürös, M., Rogozin, I. B., & Koonin, E. V. (2007) · Trends in Genetics · doi:10.1016/j.tig.2007.01.001 · Cited by 21

Intron distribution in Plantae: 500 million years of stasis during land plant evolution

Teich, R., Grauvogel, C., & Petersen, J. (2007) · Gene · doi:10.1016/j.gene.2007.02.011 · Cited by 20

Intron-rich dinoflagellate genomes driven by Introner transposable elements of unprecedented diversity

Roy, S. W., Gozashti, L., Bowser, B. A., Weinstein, B. N., Larue, G. E., & Corbett-Detig, R. B. (2020) · Current Biology · doi:10.1016/j.cub.2022.11.046 · Cited by 22

Ligand-binding specificity of an invertebrate (Manduca sexta) putative cellular retinoic acid binding protein

Folli, C., Ramazzina, I., Percudani, R., & Berni, R. (2004) · Biochimica et Biophysica Acta (BBA) - Proteins and Proteomics · doi:10.1016/j.bbapap.2004.11.013 · Cited by 20

Genome-Wide Analysis of the NF-YB Gene Family in Gossypium hirsutum L. and Characterization of the Role of GhDNF-YB22 in Embryogenesis

Chen, Y., Yang, Z., Xiao, Y., Wang, P., Wang, Y., Ge, X., Zhang, C., Zhang, X., & Li, F. (2018) · International Journal of Molecular Sciences · doi:10.3390/ijms19020483 · Cited by 20

Actin Phylogeny and Intron Distribution in Bangiophyte Red Algae(Rhodoplantae)

Hoef‐Emden, K., Shrestha, R. P., Lapidot, M., Weinstein, Y., Melkonian, M., & Arad, S. M. (2005) · Journal of Molecular Evolution · doi:10.1007/s00239-004-0366-3 · Cited by 20

In silico characterization and comparative genomic analysis of the Culex quinquefasciatus glutathione S-transferase (GST) supergene family

Reddy, B. P. N., Prasad, G. B. K. S., & Raghavendra, K. (2011) · Parasitology Research · doi:10.1007/s00436-011-2364-x · Cited by 20

Tempo and Mode of Spliceosomal Intron Evolution in Actin of Foraminifera

Flakowski, J., Bolívar, I., Fahrni, J. F., & Pawlowski, J. W. (2006) · Journal of Molecular Evolution · doi:10.1007/s00239-005-0061-z · Cited by 20

Population Genomics of Intron Splicing in 38 Saccharomyces cerevisiae Genome Sequences

Skelly, D. A., Ronald, J., Connelly, C. F., & Akey, J. M. (2009) · Genome Biology and Evolution · doi:10.1093/gbe/evp046 · Cited by 19

Exocyst subunit Sec6 is positioned by microtubule overlaps in the moss phragmoplast prior to cell plate membrane arrival

Tang, H., de Keijzer, J., Overdijk, E. J. R., Sweep, E., Steentjes, M. B. F., Vermeer, J. E. M., Janson, M. E., & Ketelaar, T. (2019) · Journal of Cell Science · doi:10.1242/jcs.222430 · Cited by 19

Genomic analysis and gene structure of the two invertase families in the domesticated apple (Malus × domestica Borkh.)

TaeKyung, H., Eom, S.-H., & jusung, K. (2011) · Plant Omics · Cited by 19

Of mites and millipedes: Recent progress in resolving the base of the arthropod tree

Caravas, J., & Friedrich, M. (2010) · BioEssays · doi:10.1002/bies.201000005 · Cited by 19

Unique genome of dicyemid mesozoan: Highly shortened spliceosomal introns in conservative exon/intron structure

Ogino, K., Tsuneki, K., & Furuya, H. (2009) · Gene · doi:10.1016/j.gene.2009.09.002 · Cited by 18

Intron size minimisation in teleosts

Jakt, L. M., Dubin, A., & Johansen, S. D. (2022) · BMC Genomics · doi:10.1186/s12864-022-08760-w · Cited by 17

Functional characterization of MATE gene family under abiotic stresses and melatonin-mediated tolerance in dragon fruit (Selenicereus undatus L.)

Khan, D., Liu, H., Khokhar, A. A., Hussain, M. A., Lv, W., Zaman, Q. U., & Wang, H. (2023) · Plant Stress · doi:10.1016/j.stress.2023.100300 · Cited by 17

Two novel Mesocestoides vogae fatty acid binding proteins – functional and evolutionary implications

Alvite, G., Canclini, L., Corvo, I., & Esteves, A. (2007) · FEBS Journal · doi:10.1111/j.1742-4658.2007.06179.x · Cited by 17

Genome-wide identification and comparative analysis of Alfin-like transcription factors in maize

Zhou, W., Wu, J., Zheng, Q., Jiang, Y., Zhang, M., & Zhu, S. (2016) · Genes & Genomics · doi:10.1007/s13258-016-0491-6 · Cited by 17

Hirudin and Decorsins of the North American Medicinal Leech Macrobdella decora: Gene Structure Reveals Homology to Hirudins and Hirudin-Like Factors of Eurasian Medicinal Leeches

Müller, C. R., Lukas, P., Lemke, S., & Hildebrandt, J. (2019) · Journal of Parasitology · doi:10.1645/18-117 · Cited by 17

An Expectation-Maximization Algorithm for Analysis of Evolution of Exon-Intron Structure of Eukaryotic Genes

Carmel, L., Rogozin, I. B., Wolf, Y. I., & Koonin, E. V. (2005) · Lecture notes in computer science · doi:10.1007/11554714_4 · Cited by 17

Comparative Functional Analysis of ZFP36 Genes during Xenopus Development

Tréguer, K., Faucheux, C., Veschambre, P., Fédou, S., Thézé, N., & Thiébaud, P. (2013) · PLoS ONE · doi:10.1371/journal.pone.0054550 · Cited by 16

PCR survey of 50 introns in animals: Cross-amplification of homologous EPIC loci in eight non-bilaterian, protostome and deuterostome phyla

Gérard, K., Guilloton, E., Arnaud‐Haond, S., Aurelle, D., Bastrop, R., Chevaldonné, P., Derycke, S., Hanel, R., Lapègue, S., Lejeusne, C., et al. (2013) · Marine Genomics · doi:10.1016/j.margen.2013.10.001 · Cited by 16

Early vertebrate origin of melanocortin 2 receptor accessory proteins (MRAPs)

Valsalan, R., Krishnan, A., Almén, M. S., Fredriksson, R., & Schiöth, H. B. (2013) · General and Comparative Endocrinology · doi:10.1016/j.ygcen.2013.01.004 · Cited by 16

LEA Gene Introns: is the Intron of Dehydrin Genes a Characteristic of the Serine-Segment?

Jiménez-Bremont, J. F., Maruri‐López, I., Ochoa‐Alfaro, A. E., Delgado‐Sánchez, P., Bravo, J., & Rodríguez‐Kessler, M. (2012) · Plant Molecular Biology Reporter · doi:10.1007/s11105-012-0483-x · Cited by 17

Phylogenetic Analyses of Glycosyl Hydrolase Family 6 Genes in Tunicates: Possible Horizontal Transfer

Li, K.-L., Nakashima, K., Inoue, J. G., & Satoh, N. (2020) · Genes · doi:10.3390/genes11080937 · Cited by 15

Genome-wide analysis of ZAT gene family revealed GhZAT6 regulates salt stress tolerance in G. hirsutum

Chen, G., Liu, Z., Li, S., Qanmber, G., Liu, L., Guo, M., Lu, L., Ma, S., Li, F., & Yang, Z. (2021) · Plant Science · doi:10.1016/j.plantsci.2021.111055 · Cited by 15

Genome-wide identification and expression profile of YABBY genes in Averrhoa carambola

Li, C., Dong, N., Shen, L., Meng, L., Zhai, J., Zhao, Y., Chen, L., Wan, Z., Liu, Z., Ren, H., et al. (2022) · PeerJ · doi:10.7717/peerj.12558 · Cited by 15

Genome-wide identification and expression analysis of the coronatine-insensitive 1 (COI1) gene family in response to biotic and abiotic stresses in Saccharum

Sun, T., Meng, Y., Cen, G., Feng, A., Su, W., Chen, Y., You, C., Que, Y., & Su, Y. (2022) · BMC Genomics · doi:10.1186/s12864-021-08255-0 · Cited by 15

Alignment-Free Analysis of Whole-Genome Sequences From Symbiodiniaceae Reveals Different Phylogenetic Signals in Distinct Regions

Lo, R., Dougan, K. E., Chen, Y., Shah, S., Bhattacharya, D., & Chan, C. X. (2022) · Frontiers in Plant Science · doi:10.3389/fpls.2022.815714 · Cited by 17

Comparative genomics reveals insight into the evolutionary origin of massively scrambled genomes

Feng, Y., Neme, R., Beh, L. Y., Chen, X., Braun, J., Lu, M. W., & Landweber, L. F. (2022) · eLife · doi:10.7554/elife.82979 · Cited by 15

Microhomology-Mediated Intron Loss during Metazoan Evolution

van Schendel, R., & Tijsterman, M. (2013) · Genome Biology and Evolution · doi:10.1093/gbe/evt088 · Cited by 15

Genome-wide identification and characterization of glucose transporter (glut) genes in spotted sea bass (Lateolabrax maculatus) and their regulated hepatic expression during short-term starvation

Fan, H., Zhou, Y., Wen, H., Zhang, X., Zhang, K., Qi, X., Xu, P., & Li, Y. (2019) · Comparative Biochemistry and Physiology Part D Genomics and Proteomics · doi:10.1016/j.cbd.2019.03.007 · Cited by 15

Organisation of trypsin genes in the salmon louse (Lepeophtheirus salmonis, Crustacea, copepoda) genome

Kvamme, B. O., Kongshaug, H., & Nilsen, F. (2005) · Gene · doi:10.1016/j.gene.2005.03.011 · Cited by 15

Analysis of PRX Gene Family and Its Function on Cell Lignification in Pears (Pyrus bretschneideri)

Xie, Z., Rui, W., Yuan, Y., Song, X., Liu, X., Gong, X., Bao, J., Zhang, S., Shahrokh, K., & Tao, S. (2021) · Plants · doi:10.3390/plants10091874 · Cited by 14

Inter-species association mapping links splice site evolution to METTL16 and SNRNP27K

Parker, M. T., Fica, S. M., Barton, G. J., & Simpson, G. G. (2023) · eLife · doi:10.7554/elife.91997 · Cited by 15

Molecular evolution analysis of WUSCHEL-related homeobox transcription factor family reveals functional divergence among clades in the homeobox region

Segatto, A. L. A., Thompson, C. E., & Freitas, L. B. (2016) · Development Genes and Evolution · doi:10.1007/s00427-016-0545-4 · Cited by 14

Molecular evolution of the EGF–CFC protein family

Ravisankar, V. C., Singh, T. P., & Manoj, N. (2011) · Gene · doi:10.1016/j.gene.2011.05.007 · Cited by 14

Introns: Mighty Elements from the RNA World

Fedorov, A. N., & Fedorova, L. V. (2004) · Journal of Molecular Evolution · doi:10.1007/s00239-004-2660-5 · Cited by 14

Splice Sites Seldom Slide: Intron Evolution in Oomycetes

Bocco, S. S., & Csürös, M. (2016) · Genome Biology and Evolution · doi:10.1093/gbe/evw157 · Cited by 13

The Evolution of Spliceosomal Introns in Alveolates

Nguyen, H. D., Yoshihama, M., & Kenmochi, N. (2007) · Molecular Biology and Evolution · doi:10.1093/molbev/msm037 · Cited by 13

Identification of DREB gene family in foxtail millet (Setaria italica) and analysis of its expression pattern in response to abiotic stress

Yang, Y., Li, Y., Guo, Z., Zhao, Y., Zhou, X., Han, Y., & Lin, X. (2025) · Frontiers in Plant Science · doi:10.3389/fpls.2025.1552120 · Cited by 12

Comprehensive Genomic Characterization of the NAC Transcription Factors and Their Response to Drought Stress in Dendrobium catenatum

Li, Y., Zhang, T., Xing, W., Wang, J., Yu, W., & Zhou, Y. (2022) · Agronomy · doi:10.3390/agronomy12112753 · Cited by 12

Taxonomy of introns and the evolution of minor introns

Olthof, A. M., Schwoerer, C. F., Girardini, K. N., Weber, A. L., Doggett, K., Mieruszynski, S., Heath, J. K., Moore, T. E., Biran, J., & Kanadia, R. (2024) · Nucleic Acids Research · doi:10.1093/nar/gkae550 · Cited by 12

Unraveling the evolution and regulation of the alternative oxidase gene family in plants

Pu, X., Lv, X., & Lin, H. (2015) · Development Genes and Evolution · doi:10.1007/s00427-015-0515-2 · Cited by 12

Diversification of Quiescin sulfhydryl oxidase in a preserved framework for redox relay

Limor-Waisberg, K., Ben‐Dor, S., & Fass, D. (2013) · BMC Evolutionary Biology · doi:10.1186/1471-2148-13-70 · Cited by 12

Structural features and gene-expression profiles of actin homologs in Porphyra yezoensis (Rhodophyta)

Kitade, Y., Nakamura, M., Uji, T., Fukuda, S., Endo, H., & Saga, N. (2008) · Gene · doi:10.1016/j.gene.2008.07.009 · Cited by 12

Genome-wide identification of U-box gene family and expression analysis in response to saline-alkali stress in foxtail millet (Setaria italica L. Beauv)

Zhou, X., Li, Y., Wang, J., Zhao, Y., Wang, H., Han, Y., & Lin, X. (2024) · Frontiers in Genetics · doi:10.3389/fgene.2024.1356807 · Cited by 11

Where the minor things are: a pan-eukaryotic survey suggests neutral processes may explain much of minor intron evolution

Larue, G. E., & Roy, S. W. (2023) · Nucleic Acids Research · doi:10.1093/nar/gkad797 · Cited by 11

Pax2/5/8 and Pax6 alternative splicing events in basal chordates and vertebrates: a focus on paired box domain

Fábián, P., Kozmiková, I., Kozmík, Z., & Pantzartzi, C. N. (2015) · Frontiers in Genetics · doi:10.3389/fgene.2015.00228 · Cited by 11

Analysis of CACTA transposases reveals intron loss as major factor influencing their exon/intron structure in monocotyledonous and eudicotyledonous hosts

Buchmann, J. P., Löytynoja, A., Wicker, T., & Schulman, A. H. (2014) · Mobile DNA · doi:10.1186/1759-8753-5-24 · Cited by 11

How Common Is Parallel Intron Gain? Rapid Evolution Versus Independent Creation in Recently Created Introns inDaphnia

Roy, S. W. (2016) · Molecular Biology and Evolution · doi:10.1093/molbev/msw091 · Cited by 11

Genome-wide identification and expression analysis of NtbHLH gene family in tobacco (Nicotiana tabacum) and the role of NtbHLH86 in drought adaptation

Bai, G., Yang, D., Chao, P., Yao, H., Fei, M., Zhang, Y., Chen, X., Xiao, B., Li, F., Wang, Z., et al. (2020) · Acta Botanica Yunnanica · doi:10.1016/j.pld.2020.10.004 · Cited by 11

The Birth of New Genes by RNA- and DNA-Mediated Duplication during Mammalian Evolution

Jun, J., Ryvkin, P., Hemphill, E., Măndoiu, I., & Nelson, C. E. (2009) · Journal of Computational Biology · doi:10.1089/cmb.2009.0073 · Cited by 12

Genomic identification of cotton SAC genes branded ovule and stress-related key genes in Gossypium hirsutum

Ma, S., Liu, L., Shi, H., Gu, Y., Li, Y., & Qanmber, G. (2023) · Frontiers in Plant Science · doi:10.3389/fpls.2023.1123745 · Cited by 10

A Gradient in the Distribution of Introns in Eukaryotic Genes

Ruvinsky, A. O., & Ward, W. (2006) · Journal of Molecular Evolution · doi:10.1007/s00239-005-0261-6 · Cited by 10

Models of spliceosomal intron proliferation in the face of widespread ectopic expression

Rodrı́guez-Trelles, F., Tarrı́o, R., & Ayala, F. J. (2005) · Gene · doi:10.1016/j.gene.2005.09.004 · Cited by 10

Intron evolution in Neurospora : the role of mutational bias and selectionPreprint

Sun, Y., Whittle, C. A., Corcoran, P., & Johannesson, H. (2014) · Genome Research · doi:10.1101/gr.175653.114 · Cited by 10

Comparative analysis of POD gene family and expression differentiation under NaCl, H2O2 and PEG stresses in sorghum

Shi, L., Zhang, H., Chen, H., Liu, H., Liu, X., Zheng, X., Zou, G., & Wang, J. (2025) · BMC Genomics · doi:10.1186/s12864-025-11858-6 · Cited by 9

Evolution of eukaryotic genome architecture: Insights from the study of a rapidly evolving metazoan, Oikopleura dioica

Chavali, S., Morais, D. A. D. L., Gough, J., & Babu, M. M. (2011) · BioEssays · doi:10.1002/bies.201100034 · Cited by 10

Genome-wide analysis of invertase gene family in wheat (Triticum aestivum L.) indicates involvement of TaCWINVs in pollen development

Ye, J., Bu, Y., He, M., Wu, Y., Yang, X., Zhang, L., & Song, X. (2022) · Plant Growth Regulation · doi:10.1007/s10725-022-00834-9 · Cited by 9

On the Estimation of Intron Evolution

Csürös, M. (2006) · PLoS Computational Biology · doi:10.1371/journal.pcbi.0020084 · Cited by 9

Horizontal transmission of functionally diverse transposons is a major source of new introns

Gozashti, L., Nakamoto, A., Russell, S. L., & Corbett-Detig, R. B. (2025) · Proceedings of the National Academy of Sciences · doi:10.1073/pnas.2414761122 · Cited by 8

Genome-wide analysis of peroxidase genes in passion fruit (Passiflora edulis sims.) and their expression patterns induced by root colonization of Piriformospora indica under cold stress

Liang, D., Ali, M. M., Alam, S. M., HUANG, X., Yousef, A. F., Mosa, W. F. A., Orhan, E., LIN, Z., & Chen, F. (2022) · TURKISH JOURNAL OF AGRICULTURE AND FORESTRY · doi:10.55730/1300-011x.3021 · Cited by 8

Identification and expression analysis of the lipid phosphate phosphatases gene family reveal their involvement in abiotic stress response in kiwifruit

Yang, Y., Chen, L., Su, G., Liu, F., Zeng, Q., Li, R., Cha, G., Liu, C., Xing, L., Ren, X., et al. (2022) · Frontiers in Plant Science · doi:10.3389/fpls.2022.942937 · Cited by 8

Identification of CDK gene family and functional analysis of CqCDK15 under drought and salt stress in quinoa

Wang, W., Liu, W., & Wang, B. (2023) · BMC Genomics · doi:10.1186/s12864-023-09570-4 · Cited by 8

Structural and functional characteristics and expression profile of the 20S proteasome gene family in Sorghum under abiotic stress

Malik, V., Ikram, F. M., Singh, Y., Kumar, V., Malik, P., Balyan, P., Singh, K. P., Mir, R. R., Hashem, A., Ávila-Quezada, G. D., et al. (2023) · Frontiers in Plant Science · doi:10.3389/fpls.2023.1287950 · Cited by 8

Analysis of CACTA transposase genes unveils the mechanism of intron loss and distinct small RNA silencing pathways underlying divergent evolution of Brassica genomes

Liu, B., Iwata‐Otsubo, A., Yang, D., Baker, R. L., Liang, C., Jackson, S. A., Liu, S., Ma, J., & Zhao, M. (2020) · The Plant Journal · doi:10.1111/tpj.15037 · Cited by 8

Evolution of Functional Diversity Among Actin-Binding Profilin Genes in Land Plants

Pandey, D. K., & Chaudhary, B. (2020) · Frontiers in Cell and Developmental Biology · doi:10.3389/fcell.2020.588689 · Cited by 8

Integrative Perspectives: In Quest of a Coherent Framework for Origins of Life on Earth

Egel, R. (2011) · Springer eBooks · doi:10.1007/978-3-642-21625-1_12 · Cited by 8

JuncDB: an exon–exon junction database

Chorev, M., Guy, L., & Carmel, L. (2015) · Nucleic Acids Research · doi:10.1093/nar/gkv1142 · Cited by 8

Sequence Polymorphism of 2 Pioneer Genes Expressed in Phytoparasitic Nematodes Showing Different Host Ranges

Blanchard, A., Fouville, D., Esquibet, M., Mugniéry, D., & Grenier, É. (2007) · Journal of Heredity · doi:10.1093/jhered/esm050 · Cited by 8

Analysis of evolution of exon-intron structure of eukaryotic genes

Rogozin, I. B. (2005) · Briefings in Bioinformatics · doi:10.1093/bib/6.2.118 · Cited by 269

Protein‐Coding Segments: Evolution of Exon–Intron Gene Structure

Igor, R. E. (2021) · Encyclopedia of Life Sciences · doi:10.1002/9780470015902.a0029344

Patterns of intron gain and conservation in eukaryotic genes

Carmel, L., Rogozin, I. B., Wolf, Y. I., & Koonin, E. V. (2007) · BMC Evolutionary Biology · doi:10.1186/1471-2148-7-192 · Cited by 81

Spliceosomal Introns: New Insights into their Evolution

Zhaxybayeva, O., & Gogarten, J. P. (2003) · Current Biology · doi:10.1016/j.cub.2003.09.017 · Cited by 33

Large-scale intron conservation and order-of-magnitude variation in intron loss/gain rates in apicomplexan evolutionPreprint

Roy, S. W., & Penny, D. (2006) · Genome Research · doi:10.1101/gr.5410606 · Cited by 44