The DOI matches its Crossref record; 149 of the 149 references it cites were found in a registry or an index.
Genomic signatures of evolutionary transitions from solitary to group living
Abstract
For bees, many roads lead to social harmony: Eusociality, where workers sacrifice their reproductive rights to support the colony, has evolved repeatedly and represents the most evolved form of social evolution in insects. Kapheim et al. looked across the genomes of 10 bee species with varying degrees of sociality to determine the underlying genomic contributions. No one genomic path led to eusociality, but similarities across genomes were seen in features such as increases in gene regulation and methylation. It also seems that selection pressures relaxed after the emergence of complex sociality. Science , this issue p. 1139
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“The result from Kapheim et al. (88) gives the first glimpse of a special signature tied to GRNs for social behavior, but this is intriguingly reminiscent of a cis-regulatory signature seen in developmental studies in Drosophila.”
From Behavior-related gene regulatory networks: A new level of organization in the brain (2020) · cites this paper as [88]
In the citing paper
“These finding and those in refs. 89–91 support the prediction that changes in gene regulation are key features of the evolutionary transition from solitary to social life, at least in the social insects.”
From Behavior-related gene regulatory networks: A new level of organization in the brain (2020) · cites this paper as [88]
In the citing paper
“Kapheim et al. (88) bioinformatically detected greater TF binding site presence (reflecting stronger binding of TFs) in gene regulatory regions from social bees compared to orthologs from solitary bee species.”
From Behavior-related gene regulatory networks: A new level of organization in the brain (2020) · cites this paper as [88]
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“This result suggested that gene regulation in social bees has increased capacity and complexity relative to nonsocial bees, encoded in the DNA.”
From Behavior-related gene regulatory networks: A new level of organization in the brain (2020) · cites this paper as [88]
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Citations
Cites
Gapped BLAST and PSI-BLAST: a new generation of protein database search programs
Altschul, S. (1997) · Nucleic Acids Research · doi:10.1093/nar/25.17.3389 · Cited by 73,302
MUSCLE: multiple sequence alignment with high accuracy and high throughput
Edgar, R. C. (2004) · Nucleic Acids Research · doi:10.1093/nar/gkh340 · Cited by 44,662
Tamura, K., Peterson, D., Peterson, N., Stecher, G., Nei, M., & Kumar, S. (2011) · Molecular Biology and Evolution · doi:10.1093/molbev/msr121 · Cited by 39,969
BEDTools: a flexible suite of utilities for comparing genomic features
Quinlan, A. R., & Hall, I. M. (2010) · Bioinformatics · doi:10.1093/bioinformatics/btq033 · Cited by 27,437
Full-length transcriptome assembly from RNA-Seq data without a reference genome
Grabherr, M. G., Haas, B. J., Yassour, M., Levin, J. Z., Thompson, D. A., Amit, I., Adiconis, X., Fan, L., Raychowdhury, R., Zeng, Q., et al. (2011) · Nature Biotechnology · doi:10.1038/nbt.1883 · Cited by 21,039
jModelTest 2: more models, new heuristics and parallel computing
Darriba, D., Taboada, G. L., Doallo, R., & Posada, D. (2012) · Nature Methods · doi:10.1038/nmeth.2109 · Cited by 16,785
Huang, D. W., Sherman, B. T., & Lempicki, R. A. (2009) · Nucleic Acids Research · doi:10.1093/nar/gkn923 · Cited by 14,108
The Pfam Protein Families Database
Bateman, A. (2002) · Nucleic Acids Research · doi:10.1093/nar/30.1.276 · Cited by 14,000
APE: analyses of phylogenetics and evolution in R language
Paradis, E., Claude, J., & Strimmer, K. (2004) · Bioinformatics · doi:10.1093/bioinformatics/btg412 · Cited by 11,335
Phylogenies and the Comparative Method
Felsenstein, J. (1985) · The American Naturalist · doi:10.1086/284325 · Cited by 9,793
Research works printed but not linked: 2
- D. W. Pfaff A. P. Arnold A. M. Etgen R. T. Rubin S. E. Fahrbach Eds. Hormones Brain and Behavior (Elsevier New York 2009).
- E. W. Hare J. S. Johnston in Molecular Methods for Evolutionary Genetics V. Orgogozo M. Rockman Eds. (Humana New York 2011) pp. 3–12.
Cited by
Convergent evolution in the genomics era: new insights and directions
Sackton, T. B., & Clark, N. (2019) · Philosophical Transactions of the Royal Society B: Biological Sciences · doi:10.1098/rstb.2019.0102 · Cited by 129
Reciprocity and alignment: quantifying coupling in dynamic interactions
Dumas, G., & Fairhurst, M. T. (2021) · Royal Society Open Science · doi:10.1098/rsos.210138 · Cited by 88
Behavior-related gene regulatory networks: A new level of organization in the brain
Sinha, S., Jones, B. M., Traniello, I. M., Bukhari, S. A., Halfon, M. S., Hofmann, H. A., Huang, S., Katz, P. S., Keagy, J., Lynch, V. J., et al. (2020) · Proceedings of the National Academy of Sciences · doi:10.1073/pnas.1921625117 · Cited by 85
Self-citationLamichhaney, S., Card, D. C., Grayson, P., Tonini, J. F. R., Bravo, G. A., Näpflin, K., Termignoni-Garcia, F., Torres, C., Burbrink, F., Clarke, J. A., et al. (2019) · Philosophical Transactions of the Royal Society B: Biological Sciences · doi:10.1098/rstb.2018.0248 · Cited by 44
The Birth-and-Death Evolution of Cytochrome P450 Genes in Bees
Darragh, K., Nelson, D. R., & Ramírez, S. R. (2021) · Genome Biology and Evolution · doi:10.1093/gbe/evab261 · Cited by 27
Metadata
- Authors
- Kapheim, K. M., Pan, H., Li, C., Salzberg, S. L., Puiu, D., Magoc, T., Robertson, H. M., Hudson, M. E., Venkat, A., Fischman, B. J., Hernandez, A., Yandell, M., Ence, D., Holt, C., Yocum, G. D., Kemp, W. P., Bosch, J., Waterhouse, R. M., Zdobnov, E. M., Stolle, E., Kraus, F. B., Helbing, S., Moritz, R. F. A., Glastad, K. M., Hunt, B. G., Goodisman, M. A. D., Hauser, F., Grimmelikhuijzen, C. J. P., Pinheiro, D. G., Nunes, F. M. F., Soares, M. P. M., Tanaka, É. D., Simões, Z. L. P., Hartfelder, K., Evans, J. D., Barribeau, S. M., Johnson, R. M., Massey, J. H., Southey, B. R., Hasselmann, M., Hamacher, D., Biewer, M., Kent, C. F., Zayed, A., Blatti, C., Sinha, S., Johnston, J. S., Hanrahan, S. J., Kocher, S. D., Wang, J., Robinson, G. E., & Zhang, G.
- Affiliations
- Carl R. Woese Institute for Genomic Biology, University of Illinois at Urbana-Champaign, Urbana, IL 61801, USA.
- China National GeneBank, BGI-Shenzhen, Shenzhen, 518083, China.
- Departments of Biomedical Engineering, Computer Science, and Biostatistics, Johns Hopkins University, Baltimore, MD 21218, USA.
- Center for Computational Biology, McKusick-Nathans Institute of Genetic Medicine, Johns Hopkins University School of Medicine, Baltimore, MD 21205, USA.
- Roy J. Carver Biotechnology Center, University of Illinois at Urbana-Champaign, Urbana, IL 61801, USA.
- Department of Human Genetics, Eccles Institute of Human Genetics, University of Utah, Salt Lake City, UT 84112, USA.
- U.S. Department of Agriculture–Agricultural Research Service (USDA-ARS) Red River Valley Agricultural Research Center, Biosciences Research Laboratory, Fargo, ND 58102, USA.
- Center for Ecological Research and Forestry Applications (CREAF), Universitat Autonoma de Barcelona, 08193 Bellaterra, Spain.
- Department of Genetic Medicine and Development, University of Geneva Medical School, 1211 Geneva, Switzerland.
- Institute of Biology, Department Zoology, Martin-Luther-University Halle-Wittenberg, Hoher Weg 4, D-06099 Halle (Saale), Germany.
- School of Biology, Georgia Institute of Technology, Atlanta, GA 30332, USA.
- Department of Entomology, University of Georgia, Griffin, GA 30223, USA.
- Center for Functional and Comparative Insect Genomics, Department of Biology, University of Copenhagen, Copenhagen, Denmark.
- Departamento de Biologia, Faculdade de Filosofia, Ciências e Letras de Ribeirão Preto, Universidade de São Paulo, 14040-901 Ribeirão Preto, SP, Brazil.
- Departamento de Genética e Evolução, Centro de Ciências Biológicas e da Saúde, Universidade Federal de São Carlos, 13565-905 São Carlos, SP, Brazil.
- Departamento de Genética, Faculdade de Medicina de Ribeirão Preto, Universidade de São Paulo, 14049-900 Ribeirão Preto, SP, Brazil.
- Departamento de Biologia Celular e Molecular e Bioagentes Patogênicos, Faculdade de Medicina de Ribeirão Preto, Universidade de São Paulo, 14049-900 Ribeirão Preto, SP, Brazil.
- USDA-ARS Bee Research Lab, Beltsville, MD 20705 USA.
- Department of Biology, East Carolina University, Greenville, NC 27858, USA.
- Department of Entomology, Ohio Agricultural Research and Development Center, Ohio State University, Wooster, OH 44691, USA.
- Department of Entomology, University of Illinois at Urbana-Champaign, Urbana, IL 61801, USA.
- Department of Animal Sciences, University of Illinois, Urbana, IL 61801, USA.
- Department of Population Genomics, Institute of Animal Husbandry and Animal Breeding, University of Hohenheim, Germany.
- Department of Biology, York University, Toronto, ON M3J 1P3, Canada.
- Department of Entomology, Texas A&M University, College Station, TX 77843, USA.
- Department of Organismic and Evolutionary Biology, Museum of Comparative Zoology, Harvard University, Cambridge, MA 02138, USA.
- Venue
- Science
- Published
- 2015-06-05
- Volume
- 348
- Issue
- 6239
- Pages
- 1139-1143
- ISSN
- 0036-8075
- 1095-9203
- PMC
- PMC5471836
- Cited by
- 409
- References
- 149
- Language
- en
- Funders
- U.S. National Science Foundation (DEB-0640690, DEB-0743154)
- Natural Sciences and Engineering Research Council of Canada
- Swiss National Science Foundation (31003A-125350)
- BGI
- Lundbeck Foundation
- Danish Council for Independent Research (10-081390, 0602-01170B)
- U.S. National Institutes of Health Pioneer Award (DP1 OD006416)
- European Union Marie Curie International Incoming Fellowship (300837)
- Georgia Tech-Elizabeth Smithgall Watts
- Marie Curie International Outgoing Fellowship (PIOF-GA-2011-303312)
- Commission Informatique of the University of Geneva
- Schmidheiny Foundation
- Swiss Institute of Bioinformatics
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Contains information from the Semantic Scholar Academic Graph Datasets, made available under the ODC Attribution License (ODC-BY 1.0).
Semantic Scholar’s data is described in: Kinney, R., et al. (2023). The Semantic Scholar Open Data Platform. arXiv:2301.10140.
