The DOI matches its Crossref record; 36 of the 36 references it cites were found in a registry or an index.
Genome scan for cis-regulatory DNA motifs associated with social behavior in honey bees
Abstract
Honey bees ( Apis mellifera ) undergo an age-related, socially regulated transition from working in the hive to foraging, which is associated with changes in the expression of thousands of genes in the brain. To begin to study the cis-regulatory code underlying this massive social regulation of gene expression, we used the newly sequenced honey bee genome to scan the promoter regions of eight sets of behaviorally related genes differentially expressed in the brain in the context of division of labor among worker bees, for 41 cis-regulatory motifs previously characterized in Drosophila melanogaster . Binding sites for the transcription factors Hairy, GAGA, Adf1, Cf1, Snail, and Dri, known to function in nervous system development, olfactory learning, or hormone binding in Drosophila , were significantly associated with one or more gene sets. The presence of some binding sites also predicted expression patterns for as many as 71% of the genes in some gene sets. These results suggest that there is a robust relationship between cis and social regulation of brain gene expression, especially considering that we studied <15% of all known transcription factors. These results also suggest that transcriptional networks involved in the regulation of development in Drosophila are used to regulate behavioral development in adult honey bees. However, differences in gene regulation between these two processes are suggested by the finding that the promoter regions for the behaviorally related bee genes differed in both motif occurrence and G/C content relative to their Drosophila orthologs.
Overview
The claims and statistics of this paper haven’t been checked yet.
Run the check — free, no account needed. It reads the open-access text and checks the sources it cites.
Integrity signals
Registry
Cites
Statistics
Verification
Claims the paper makes
The claims and statistics of this paper haven’t been checked yet.
Run the check — free, no account needed. It reads the open-access text and checks the sources it cites.
Claims other papers make about this one
Each is checked against this paper’s own text: does it say what the citing paper says it does?
In the citing paper
“For instance, transcriptomic changes associated with behavior—the consequence of bGRN activity—often include genes involved in nervous system development (67).”
From Behavior-related gene regulatory networks: A new level of organization in the brain (2020) · cites this paper as [67]
Self-check
Percentages, sums and reported differences re-computed from the paper’s own numbers.
The self-check needs the paper’s full text.
Citations
Cites
Tandem repeats finder: a program to analyze DNA sequences
Benson, G. (1999) · Nucleic Acids Research · doi:10.1093/nar/27.2.573 · Cited by 9,374
Grimaldi, D. A., & Engel, M. S. (2005) · Cited by 2,618
Insights into social insects from the genome of the honeybee Apis mellifera
The Honeybee Genome Sequencing Consortium (2006) · Nature · doi:10.1038/nature05260 · Cited by 1,865
JASPAR: an open-access database for eukaryotic transcription factor binding profiles
Sandelin, A., Alkema, W. B. L., Engström, P. G., Wasserman, W. W., & Lenhard, B. (2003) · Nucleic Acids Research · doi:10.1093/nar/gkh012 · Cited by 1,830
(2009) · Elsevier eBooks · doi:10.1016/c2009-1-03789-7 · Cited by 1,539
The neurobiology of attachment
Insel, T. R., & Young, L. J. (2001) · Nature Reviews Neuroscience · doi:10.1038/35053579 · Cited by 1,173
Rhodes, D. R., Yu, J., Shanker, K., Deshpande, N., Varambally, R., Ghosh, D., Barrette, T., Pandey, A., & Chinnaiyan, A. M. (2004) · Proceedings of the National Academy of Sciences · doi:10.1073/pnas.0401994101 · Cited by 1,019
From DNA to diversity: molecular genetics and the evolution of animal design
(2002) · Choice Reviews Online · doi:10.5860/choice.39-5182 · Cited by 983
Tissue Classification with Gene Expression Profiles
Ben-Dor, A., Bruhn, L., Friedman, N., Nachman, I., Schummer, M., & Yakhini, Z. (2000) · Journal of Computational Biology · doi:10.1089/106652700750050943 · Cited by 741
From DNA to Diversity: Molecular Genetics and the Evolution of Animal Design
Gostling, N. J. (2002) · Heredity · doi:10.1038/sj.hdy.6800154 · Cited by 620
Gene Expression Profiles in the Brain Predict Behavior in Individual Honey Bees
Whitfield, C. W., Cziko, A.-M., & Robinson, G. E. (2003) · Science · doi:10.1126/science.1086807 · Cited by 527
Self-citationSociogenomics: social life in molecular terms
Robinson, G. E., Grozinger, C. M., & Whitfield, C. W. (2005) · Nature Reviews Genetics · doi:10.1038/nrg1575 · Cited by 454
Self-citationInfluence of Gene Action Across Different Time Scales on Behavior
Ben-Shahar, Y., Robichon, A., Sokolowski, M. B., & Robinson, G. E. (2002) · Science · doi:10.1126/science.1069911 · Cited by 433
Self-citationLaubichler, M. D. (2003) · Max Planck Institute for Plasma Physics · Cited by 387
Zhou, X., & Riddiford, L. M. (2002) · Development · doi:10.1242/dev.129.9.2259 · Cited by 336
GeneMerge—post-genomic analysis, data mining, and hypothesis testing
Castillo-Davis, C. I., & Hartl, D. L. (2003) · Bioinformatics · doi:10.1093/bioinformatics/btg114 · Cited by 300
Ultraspiracle: An invertebrate nuclear receptor for juvenile hormones
Jones, G., & Sharp, P. A. (1997) · Proceedings of the National Academy of Sciences · doi:10.1073/pnas.94.25.13499 · Cited by 281
Genomic dissection of behavioral maturation in the honey bee
Whitfield, C. W., Ben‐Shahar, Y., Brillet, C., Léoncini, I., Crauser, D., Conte, Y. L., Rodriguez‐Zas, S. L., & Robinson, G. E. (2006) · Proceedings of the National Academy of Sciences · doi:10.1073/pnas.0606909103 · Cited by 261
Self-citationTranscriptional Control in the Segmentation Gene Network of Drosophila
Schroeder, M. D., Pearce, M., Fak, J. J., Fan, H., Unnerstall, U., Emberly, E. G., Rajewsky, N., Siggia, E. D., & Gaul, U. (2004) · PLoS Biology · doi:10.1371/journal.pbio.0020271 · Cited by 241
Genomic Regulatory Networks and Animal Development
Stathopoulos, A., & Levine, M. (2005) · Developmental Cell · doi:10.1016/j.devcel.2005.09.005 · Cited by 223
A probabilistic method to detect regulatory modules
Sinha, S., van Nimwegen, E., & Siggia, E. D. (2003) · Bioinformatics · doi:10.1093/bioinformatics/btg1040 · Cited by 207
Self-citationFernandes, M., Xiao, H., & Lis, J. T. (1994) · Nucleic Acids Research · doi:10.1093/nar/22.2.167 · Cited by 167
Molecular biology and anatomy of Drosophila olfactory associative learning
Roman, G., & Davis, R. L. (2001) · BioEssays · doi:10.1002/bies.1083 · Cited by 134
R8 development in theDrosophilaeye: a paradigm for neural selection and differentiation
Frankfort, B. J., & Mardon, G. (2002) · Development · doi:10.1242/dev.129.6.1295 · Cited by 133
Ben‐Shahar, Y., Dudek, N. L., & Robinson, G. E. (2004) · Journal of Experimental Biology · doi:10.1242/jeb.01151 · Cited by 125
Self-citationWeaver, I. C. G., Szyf, M., & Meaney, M. J. (2002) · Endocrine Research · doi:10.1081/erc-120016989 · Cited by 121
Isochores and tissue-specificity
Vinogradov, A. E. (2003) · Nucleic Acids Research · doi:10.1093/nar/gkg699 · Cited by 113
Ashraf, S. I., Hu, X., Roote, J., & Ip, Y. T. (1999) · The EMBO Journal · doi:10.1093/emboj/18.22.6426 · Cited by 110
Sinha, S., Schroeder, M. D., Unnerstall, U., Gaul, U., & Siggia, E. D. (2004) · BMC Bioinformatics · doi:10.1186/1471-2105-5-129 · Cited by 89
Self-citationEndocrine Influences on the Organization of Insect Societies
Bloch, G., Wheeler, D. E., & Robinson, G. E. (2002) · Elsevier eBooks · doi:10.1016/b978-012532104-4/50042-1 · Cited by 84
Self-citationNuclear receptors of the honey bee: annotation and expression in the adult brain
Velarde, R. A., Robinson, G. E., & Fahrbach, S. E. (2006) · Insect Molecular Biology · doi:10.1111/j.1365-2583.2006.00679.x · Cited by 77
Self-citationDeZazzo, J. D., Sandstrom, D. J., de Belle, S., Velinzon, K., Smith, P., Grady, L., DelVecchio, M., Ramaswami, M., & Tully, T. (2000) · Neuron · doi:10.1016/s0896-6273(00)00016-7 · Cited by 70
Apis mellifera ultraspiracle : cDNA sequence and rapid up‐regulation by juvenile hormone
Barchuk, A. R., Maleszka, R., & Simões, Z. L. P. (2004) · Insect Molecular Biology · doi:10.1111/j.0962-1075.2004.00506.x · Cited by 63
Orenic, T. V., Held, L. I., Paddock, S. W., & Carroll, S. B. (1993) · Development · doi:10.1242/dev.118.1.9 · Cited by 52
Lee, S., Kohane, I. S., & Kasif, S. (2005) · BMC Genomics · doi:10.1186/1471-2164-6-168 · Cited by 32
The role of class I HLH genes in neural development—have they been overlooked?
Heng, J. I., & Tan, S. (2003) · BioEssays · doi:10.1002/bies.10299 · Cited by 22
Research works printed but not linked: 1
- R Velarde, GE Robinson Fahrbach SE Insect Mol Biol, in press.
Cited by
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-citation
Metadata
- Authors
- Sinha, S., Ling, X., Whitfield, C. W., Zhai, C., & Robinson, G. E.
- Affiliations
- Departments of *Computer Science and
- Entomology,
- Venue
- Proceedings of the National Academy of Sciences
- Publisher
- National Academy of Sciences
- Published
- 2006-10-31
- Volume
- 103
- Issue
- 44
- Pages
- 16352-16357
- ISSN
- 0027-8424
- 1091-6490
- Cited by
- 52
- References
- 36
- Language
- en
About these checks
Registry, retraction, Cites and statistics results are computed, not judged, with one exception: a printed reference that no index lists is read once by a model before it counts as a citation error. Claims are extracted by a model and kept only when their quote appears verbatim in the text; each cited source is then checked, with a model’s help, for whether it says what the claim relies on. Those verdicts can be wrong — read the claim’s quote and the cited source before relying on one.
Statistics and arithmetic are recomputed, not judged.
Confidence bands are shown only for fields calibrated on our annotated test set. None is calibrated yet, so no band is shown.
What counts as a claim ›How we measure confidence ›How we check this ›
Are you an author, or do you see a problem with this page? Request a review
Data sources
Bibliographic data: Semantic Scholar, OpenAlex, Crossref.
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.