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Research: The genomic basis of evolutionary differentiation among honey bees
- Bertrand Fouks,
- Philipp Brand,
- Hung N. Nguyen,
- Jacob Herman,
- Francisco Camara,
- Daniel Ence,
- Darren E. Hagen,
- Katharina J. Hoff,
- Stefanie Nachweide,
- Lars Romoth,
- Kimberly K.O. Walden,
- Roderic Guigo,
- Mario Stanke,
- Giuseppe Narzisi,
- Mark Yandell,
- Hugh M. Robertson,
- Nikolaus Koeniger,
- Panuwan Chantawannakul,
- Michael C. Schatz,
- Kim C. Worley,
- Gene E. Robinson,
- Christine G. Elsik,
- and Olav Rueppell
Genome Res. July 2021 31: 1203-1215; Published in Advance May 4, 2021, doi:10.1101/gr.272310.120
...for each species partitioned according to their orthology profiles. A. florea possessed the greatest number of lineage-specific genes followed by A. mellifera.Genome-wide patterns of positive selectionTo identify positive selection that acted on protein-coding genes during the evolution of honey bees, we...
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Research: Phenotypically distinct female castes in honey bees are defined by alternative chromatin states during larval development
- Marek Wojciechowski,
- Robert Lowe,
- Joanna Maleszka,
- Danyal Conn,
- Ryszard Maleszka,
- and Paul J. Hurd
Genome Res. October 2018 28: 1532-1542; Published in Advance August 22, 2018, doi:10.1101/gr.236497.118
...of the honey bee to produce three phenotypically distinct organisms (two female castes; queens and sterile workers, and haploid male drones) from one genotype represents one of the most remarkable examples of developmental plasticity in any phylum. The queen–worker morphological and reproductive divide...
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RESOURCE: ProtoBee: Hierarchical classification and annotation of the honey bee proteome
- Noam Kaplan and
- Michal Linial
Genome Res. November 2006 16: 1431-1438; Published in Advance October 25, 2006, doi:10.1101/gr.4916306
...ProtoBee: Hierarchical classification and annotation of the honey bee proteome Noam Kaplan and Michal Linial 1 Department of Biological Chemistry, Life Science Institute, The Hebrew University, Jerusalem 91904, Israel Abstract The recently...
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LETTER: Function and evolution of a gene family encoding odorant binding-like proteins in a social insect, the honey bee (Apis mellifera)
- Sylvain Forêt and
- Ryszard Maleszka
Genome Res. November 2006 16: 1404-1413; Published in Advance October 25, 2006, doi:10.1101/gr.5075706
...of this class of proteins ( Pelosi 1998 ). The six-cysteine signature found in the OBP family is conserved in 13 members with all the honey bee proteins having four conserved cysteines. Following the naming system proposed by Hekmat-Scafe et al. (2002) , we refer to OBPs lacking the second and the fifth...
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LETTER: Molecular and phylogenetic analyses reveal mammalian-like clockwork in the honey bee (Apis mellifera) and shed new light on the molecular evolution of the circadian clock
- Elad B. Rubin,
- Yair Shemesh,
- Mira Cohen,
- Sharona Elgavish,
- Hugh M. Robertson,
- and Guy Bloch
Genome Res. November 2006 16: 1352-1365; Published in Advance October 25, 2006, doi:10.1101/gr.5094806
...-compensated sun-compass navigation, and social behaviors such as coordination of activity, dance language communication, and division of labor. The molecular underpinnings of the bee circadian clock are largely unknown. We show that clock gene structure and expression pattern in the honey bee are more similar...
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LETTER: Annotated Expressed Sequence Tags and cDNA Microarrays for Studies of Brain and Behavior in the Honey Bee
- Charles W. Whitfield,
- Mark R. Band,
- Maria F. Bonaldo,
- Charu G. Kumar,
- Lei Liu,
- Jose R. Pardinas,
- Hugh M. Robertson,
- M. Bento Soares,
- and Gene E. Robinson
Genome Res. April 1, 2002 12: 555-566; doi:10.1101/gr.5302
...demonstrate the utility of this resource by reporting on gene expression measured in single honey bee brains. Additionally, comparative genomics approaches were used to predict or improve predictions for 122 genes in Drosophila , as well as to identify 126 genes conserved between Apis and other organisms...
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Methods: Multigenome DNA sequence conservation identifies Hox cis-regulatory elements
- Steven G. Kuntz,
- Erich M. Schwarz,
- John A. DeModena,
- Tristan De Buysscher,
- Diane Trout,
- Hiroaki Shizuya,
- Paul W. Sternberg,
- and Barbara J. Wold
Genome Res. December 2008 18: 1955-1968; Published in Advance November 3, 2008, doi:10.1101/gr.085472.108
...functional regulatory elements whose activities matched known ceh-13/lin-39 expression, with 100% specificity and a 77% recovery rate. One element was so well conserved that a similar mouse Hox cluster sequence recapitulated the native nematode expression pattern when tested in worms. Our findings...
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LETTER: Evolution of the Yellow/Major Royal Jelly Protein family and the emergence of social behavior in honey bees
- Mark David Drapeau,
- Stefan Albert,
- Robert Kucharski,
- Carsten Prusko,
- and Ryszard Maleszka
Genome Res. November 2006 16: 1385-1394; Published in Advance October 25, 2006, doi:10.1101/gr.5012006
...the genomic region containing the genes encoding MRJPs. We describe the molecular evolution of these protein families. We then characterize developmental-stage-specific, sex-specific, and caste-specific expression patterns of the mrjp and yellow genes in the honey bee. We review empirical evidence concerning...
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COMMENTARY: Community annotation: Procedures, protocols, and supporting tools
- Christine G. Elsik,
- Kim C. Worley,
- Lan Zhang,
- Natalia V. Milshina,
- Huaiyang Jiang,
- Justin T. Reese,
- Kevin L. Childs,
- Anand Venkatraman,
- C. Michael Dickens,
- George M. Weinstock,
- and Richard A. Gibbs
Genome Res. November 2006 16: 1329-1333; Published in Advance October 25, 2006, doi:10.1101/gr.5580606
...: 3124 – 3135 . ↵ Dearden, P.K. , Wilson, M.J. , Sablan, L. , Osborne, P.W. , Havler, M. , McNaughton, E. , Kimura, K. , Milshina, N.V. , Hasselman, M. , Gempe, T. , et al. ( 2006 ) Patterns of conservation and change in honey bee developmental genes . Genome Res. (this issue) . ↵ Dehal, P. , Satou, Y...
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Research: Damage-responsive elements in Drosophila regeneration
- Elena Vizcaya-Molina,
- Cecilia C. Klein,
- Florenci Serras,
- Rakesh K. Mishra,
- Roderic Guigó,
- and Montserrat Corominas
Genome Res. December 2018 28: 1852-1866; Published in Advance November 20, 2018, doi:10.1101/gr.233098.117
...developmental stages, as well as with endogenous enhancers that show increased activity after injury. Together, these enhancers host binding sites for regulatory proteins that include a core set of conserved transcription factors that control regeneration across metazoans.Research in regenerative medicine seeks...
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