Genetics - 2011

Laverty, C., Li, F., Belikoff, E. J., & Scott, M. J. (2011). Abnormal Dosage Compensation of Reporter Genes Driven by the Drosophila Glass Multiple Reporter (GMR) Enhancer-Promoter. PLoS ONE, 6(5), e20455. https://doi.org/10.1371/journal.pone.0020455

Reese, B. N., Payne, G. A., Nielsen, D. M., & Woloshuk, C. P. (2011). Gene Expression profile and response to maize kernels by Aspergillus flavus. Phytopathology, 101(7), 797–804. https://doi.org/10.1094/PHYTO-09-10-0261

Salzmann, C. A., Olivry, T. J. M., Nielsen, D. M., Paps, J. S., Harris, T. L., & Olby, N. J. (2011). Genome-wide linkage study of atopic dermatitis in West Highland White Terriers. BMC Genetics, 12(1), 37. https://doi.org/10.1186/1471-2156-12-37

Zwarts, L., Magwire, M. M., Carbone, M. A., Versteven, M., Herteleer, L., Anholt, R. R. H., … Mackay, T. F. C. (2011). Complex genetic architecture of Drosophila aggressive behavior. Proceedings of the National Academy of Sciences, 108(41), 17070–17075. https://doi.org/10.1073/pnas.1113877108

Cabrera, A. R., Donohue, K. V., Khalil, S. M. S., Scholl, E., Opperman, C., Sonenshine, D. E., & Roe, R. M. (2011). New approach for the study of mite reproduction: The first transcriptome analysis of a mite, Phytoseiulus persimilis (Acari: Phytoseiidae). Journal of Insect Physiology, 57(1), 52–61. https://doi.org/10.1016/j.jinsphys.2010.09.006

Chakraborty, S., & Zeng, Z. B. (2011). QTL Mapping for Days to Flowering under Drought Condition in Rice (Oryza sativa L.) Genome. Notulae Botanicae Horti Agrobotanici Cluj-Napoca, 39(1), 58. https://doi.org/10.15835/nbha3915610

Stepanova, A. N., Yun, J., Robles, L. M., Novak, O., He, W., Guo, H., … Alonso, J. M. (2011). The Arabidopsis YUCCA1 Flavin Monooxygenase Functions in the Indole-3-Pyruvic Acid Branch of Auxin Biosynthesis. PLANT CELL, 23(11), 3961–3973. https://doi.org/10.1105/tpc.111.088047

Guarner, F., Sanders, M. E., Gibson, G., Klaenhammer, T., Cabana, M., Scott, K., … Hill, C. (2011, December). Probiotic and prebiotic claims in Europe: seeking a clear roadmap. https://doi.org/10.1017/s0007114511002248

He, W., Brumos, J., Li, H., Ji, Y., Ke, M., Gong, X., … Guo, H. (2011). A Small-Molecule Screen Identifies L-Kynurenine as a Competitive Inhibitor of TAA1/TAR Activity in Ethylene-Directed Auxin Biosynthesis and Root Growth in Arabidopsis. PLANT CELL, 23(11), 3944–3960. https://doi.org/10.1105/tpc.111.089029

Kaddurah-Daouk, R., Baillie, R. A., Zhu, H., Zeng, Z.-B., Wiest, M. M., Nguyen, U. T., … Krauss, R. M. (2011). Enteric Microbiome Metabolites Correlate with Response to Simvastatin Treatment. PLOS ONE, 6(10). https://doi.org/10.1371/journal.pone.0025482

Hines, H. M., Counterman, B. A., Papa, R., Moura, P. A., Cardoso, M. Z., Linares, M., … McMillan, W. O. (2011). Wing patterning gene redefines the mimetic history of Heliconius butterflies. PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA, 108(49), 19666–19671. https://doi.org/10.1073/pnas.1110096108

Shen, Q., Liu, Z., Song, F., Xie, Q., Hanley-Bowdoin, L., & Zhou, X. (2011). Tomato SlSnRK1 Protein Interacts with and Phosphorylates beta C1, a Pathogenesis Protein Encoded by a Geminivirus beta-Satellite. PLANT PHYSIOLOGY, 157(3), 1394–1406. https://doi.org/10.1104/pp.111.184648

Troxell, B., Fink, R. C., Porwollik, S., McClelland, M., & Hassan, H. M. (2011). The Fur regulon in anaerobically grown Salmonella enterica sv. Typhimurium: identification of new Fur targets. BMC MICROBIOLOGY, 11. https://doi.org/10.1186/1471-2180-11-236

Davies, K. G., Rowe, J., Manzanilla-Lopez, R., & Opperman, C. H. (2011). Re-evaluation of the life-cycle of the nematode-parasitic bacterium Pasteuria penetrans in root-knot nematodes, Meloidogyne spp. NEMATOLOGY, 13, 825–835. https://doi.org/10.1163/138855410x552670

Sommer, J. R., Estrada, J. L., Collins, E. B., Bedell, M., Alexander, C. A., Yang, Z., … Zhang, K. (2011). Production of ELOVL4 transgenic pigs: a large animal model for Stargardt-like macular degeneration. BRITISH JOURNAL OF OPHTHALMOLOGY, 95(12), 1749–1754. https://doi.org/10.1136/bjophthalmol-2011-300417

Sanchez-Duran, M. A., Dallas, M. B., Ascencio-Ibanez, J. T., Reyes, M. I., Arroyo-Mateos, M., Ruiz-Albert, J., … Bejarano, E. R. (2011). Interaction between Geminivirus Replication Protein and the SUMO-Conjugating Enzyme Is Required for Viral Infection. JOURNAL OF VIROLOGY, 85(19), 9789–9800. https://doi.org/10.1128/jvi.02566-10

Fitzsimons, H. L., & Scott, M. J. (2011). Genetic Modulation of Rpd3 Expression Impairs Long-Term Courtship Memory in Drosophila. PLoS ONE, 6(12), e29171. https://doi.org/10.1371/journal.pone.0029171

Bollee, G., Flamant, M., Schordan, S., Fligny, C., Rumpel, E., Milon, M., … Dussaule, J. C. (2011). Epidermal growth factor receptor promotes glomerular injury and renal failure in rapidly progressive crescentic glomerulonephritis. Nature Medicine, 17(10), 1242–1272.

Calsbeek, B., Lavergne, S., Patel, M., & Molofsky, J. (2011). Comparing the genetic architecture and potential response to selection of invasive and native populations of reed canary grass. EVOLUTIONARY APPLICATIONS, 4(6), 726–735. https://doi.org/10.1111/j.1752-4571.2011.00195.x

Wynn, A. N., Rueschhoff, E. E., & Franks, R. G. (2011). Transcriptomic Characterization of a Synergistic Genetic Interaction during Carpel Margin Meristem Development in Arabidopsis thaliana. PLOS ONE, 6(10). https://doi.org/10.1371/journal.pone.0026231

McFerrin, L. G., & Stone, E. A. (2011). The non-random clustering of non-synonymous substitutions and its relationship to evolutionary rate. BMC GENOMICS, 12. https://doi.org/10.1186/1471-2164-12-415

Sommer, J. R., Wong, F., & Petters, R. M. (2011). Phenotypic stability of Pro347Leu rhodopsin transgenic pigs as indicated by photoreceptor cell degeneration. TRANSGENIC RESEARCH, 20(6), 1391–1395. https://doi.org/10.1007/s11248-011-9491-0

Zhang, Y., Wheatley, R., Fulkerson, E., Tapp, A., & Estes, P. A. (2011). Mastermind mutations generate a unique constellation of midline cells within the drosophila CNS. PLoS One, 6(10).

Maragh, S., Miller, R. A., Bessling, S. L., McGaughey, D. M., Wessels, M. W., Graaf, B., … McCallion, A. S. (2011). Identification of RNA binding motif proteins essential for cardiovascular development. BMC DEVELOPMENTAL BIOLOGY, 11. https://doi.org/10.1186/1471-213x-11-62

Angstadt, A. Y., Motsinger-Reif, A., Thomas, R., Kisseberth, W. C., Couto, C. G., Duval, D. L., … Breen, M. (2011). Characterization of Canine Osteosarcoma by Array Comparative Genomic Hybridization and RT-qPCR: Signatures of Genomic Imbalance in Canine Osteosarcoma Parallel the Human Counterpart. GENES CHROMOSOMES & CANCER, 50(11), 859–874. https://doi.org/10.1002/gcc.20908

Stepanova, A. N., & Alonso, J. M. (2011, October 18). Bypassing Transcription: A Shortcut in Cytokinin-Auxin Interactions. DEVELOPMENTAL CELL, Vol. 21, pp. 608–610. https://doi.org/10.1016/j.devcel.2011.09.016

Stoeker, L., Nordone, S., Gunderson, S., Zhang, L., Kajikawa, A., LaVoy, A., … Dean, G. A. (2011). Assessment of Lactobacillus gasseri as a Candidate Oral Vaccine Vector. CLINICAL AND VACCINE IMMUNOLOGY, 18(11), 1834–1844. https://doi.org/10.1128/cvi.05277-11

Andersen, J. M., Barrangou, R., Abou Hachem, M., Lahtinen, S., Goh, Y. J., Svensson, B., & Klaenhammer, T. R. (2011). Transcriptional and functional analysis of galactooligosaccharide uptake by lacS in Lactobacillus acidophilus. PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA, 108(43), 17785–17790. https://doi.org/10.1073/pnas.1114152108

Baugher, J. L., & Klaenhammer, T. R. (2011). [Review of Invited review: Application of omics tools to understanding probiotic functionality]. JOURNAL OF DAIRY SCIENCE, 94(10), 4753–4765. https://doi.org/10.3168/jds.2011-4384

Gatti, D. M., Lu, L., Williams, R. W., Sun, W., Wright, F. A., Threadgill, D. W., & Rusyn, I. (2011). MicroRNA expression in the livers of inbred mice. MUTATION RESEARCH-FUNDAMENTAL AND MOLECULAR MECHANISMS OF MUTAGENESIS, 714(1-2), 126–133. https://doi.org/10.1016/j.mrfmmm.2011.05.007

McFerrin, L. G., & Atchley, W. R. (2011). Evolution of the Max and Mlx Networks in Animals. GENOME BIOLOGY AND EVOLUTION, 3, 915–937. https://doi.org/10.1093/gbe/evr082

Douglas, G. L., & Klaenhammer, T. R. (2011). Directed Chromosomal Integration and Expression of the Reporter Gene gusA3 in Lactobacillus acidophilus NCFM. APPLIED AND ENVIRONMENTAL MICROBIOLOGY, 77(20), 7365–7371. https://doi.org/10.1128/aem.06028-11

Reed, R. D., Papa, R., Martin, A., Hines, H. M., Counterman, B. A., Pardo-Diaz, C., … McMillan, W. O. (2011). optix Drives the Repeated Convergent Evolution of Butterfly Wing Pattern Mimicry. SCIENCE, 333(6046), 1137–1141. https://doi.org/10.1126/science.1208227

Kajikawa, A., Nordone, S. K., Zhang, L., Stoeker, L. L., LaVoy, A. S., Klaenhammer, T. R., & Dean, G. A. (2011). Dissimilar Properties of Two Recombinant Lactobacillus acidophilus Strains Displaying Salmonella FliC with Different Anchoring Motifs. APPLIED AND ENVIRONMENTAL MICROBIOLOGY, 77(18), 6587–6596. https://doi.org/10.1128/aem.05153-11

Yokoyama, K. D., Thorne, J. L., & Wray, G. A. (2011). Coordinated Genome-Wide Modifications within Proximal Promoter Cis-regulatory Elements during Vertebrate Evolution. GENOME BIOLOGY AND EVOLUTION, 3, 66–74. https://doi.org/10.1093/gbe/evq078

Duong, T., Miller, M. J., Barrangou, R., Azcarate-Peril, M. A., & Klaenhammer, T. R. (2011). Construction of vectors for inducible and constitutive gene expression in Lactobacillus. Microbial Biotechnology, 4(3), 357–367. https://doi.org/10.1111/j.1751-7915.2010.00200.x

Stone, E. A. (2011). Why the Phylogenetic Regression Appears Robust to Tree Misspecification. SYSTEMATIC BIOLOGY, 60(3), 245–260. https://doi.org/10.1093/sysbio/syq098

Sandukas, S., Yamamoto, A., & Rabiei, A. (2011). Osteoblast adhesion to functionally graded hydroxyapatite coatings doped with silver. JOURNAL OF BIOMEDICAL MATERIALS RESEARCH PART A, 97A(4), 490–497. https://doi.org/10.1002/jbm.a.33081

Merrill, R. M., Gompert, Z., Dembeck, L. M., Kronforst, M. R., McMillan, W. O., & Jiggins, C. D. (2011). MATE PREFERENCE ACROSS THE SPECIATION CONTINUUM IN A CLADE OF MIMETIC BUTTERFLIES. EVOLUTION, 65(5), 1489–1500. https://doi.org/10.1111/j.1558-5646.2010.01216.x

Zhao, Q., Weber, A. L., McMullen, M. D., Guill, K., & Doebley, J. (2011). MADS-box genes of maize: frequent targets of selection during domestication. Genetical Research, 93(1), 65–75.

Zhang, M., Tsiatis, A. A., Davidian, M., Pieper, K. S., & Mahaffey, K. W. (2011). Inference on treatment effects from a randomized clinical trial in the presence of premature treatment discontinuation: the SYNERGY trial. BIOSTATISTICS, 12(2), 258–269. https://doi.org/10.1093/biostatistics/kxq054

Cartwright, R. A., Lartillot, N., & Thorne, J. L. (2011). History Can Matter: Non-Markovian Behavior of Ancestral Lineages. SYSTEMATIC BIOLOGY, 60(3), 276–290. https://doi.org/10.1093/sysbio/syr012

Altermann, E., & Klaenhammer, T. R. (2011). Group-specific comparison of four lactobacilli isolated from human sources using differential blast analysis. GENES AND NUTRITION, 6(3), 319–340. https://doi.org/10.1007/s12263-010-0191-9

Mathes, W. F., Aylor, D. L., Miller, D. R., Churchill, G. A., Chesler, E. J., Villena, F. P.-M., … Pomp, D. (2011). Architecture of energy balance traits in emerging lines of the Collaborative Cross. AMERICAN JOURNAL OF PHYSIOLOGY-ENDOCRINOLOGY AND METABOLISM, 300(6), E1124–E1134. https://doi.org/10.1152/ajpendo.00707.2010

Conrad, D. F., Keebler, J. E. M., DePristo, M. A., Lindsay, S. J., Zhang, Y. J., Casals, F., … Hurles, M. E. (2011). Variation in genome-wide mutation rates within and between human families. Nature Genetics, 43(7), 712–137.

Aylor, D. L., Valdar, W., Foulds-Mathes, W., Buus, R. J., Verdugo, R. A., Baric, R. S., … Churchill, G. A. (2011). Genetic analysis of complex traits in the emerging Collaborative Cross. GENOME RESEARCH, 21(8), 1213–1222. https://doi.org/10.1101/gr.111310.110

Swarup, S., Williams, T. I., & Anholt, R. R. H. (2011). Functional dissection of Odorant binding protein genes in Drosophila melanogaster. GENES BRAIN AND BEHAVIOR, 10(6), 648–657. https://doi.org/10.1111/j.1601-183x.2011.00704.x

Atchley, W. R. (2011, May 13). Walter M. Fitch (1929-2011). SCIENCE, Vol. 332, pp. 804–804. https://doi.org/10.1126/science.1207426

O'Flaherty, S., & Klaenhammer, T. R. (2011). The Impact of Omic Technologies on the Study of Food Microbes. ANNUAL REVIEW OF FOOD SCIENCE AND TECHNOLOGY, VOL 2, Vol. 2, pp. 353–371. https://doi.org/10.1146/annurev-food-030810-110338

Dworkin, I., Anderson, J. A., Idaghdour, Y., Parker, E. K., Stone, E. A., & Gibson, G. (2011). The Effects of Weak Genetic Perturbations on the Transcriptome of the Wing Imaginal Disc and Its Association With Wing Shape in Drosophila melanogaster. GENETICS, 187(4), 1171–U314. https://doi.org/10.1534/genetics.110.125922

Santa-Maria, M. C., Yencho, C. G., Haigler, C. H., Thompson, W. F., Kelly, R. M., & Sosinski, B. (2011). Starch Self-Processing in Transgenic Sweet Potato Roots Expressing a Hyperthermophilic alpha-Amylase. BIOTECHNOLOGY PROGRESS, 27(2), 351–359. https://doi.org/10.1002/btpr.573

Fronza, R., Tramonti, M., Atchley, W. R., & Nardini, C. (2011). Joint analysis of transcriptional and post-transcriptional brain tumor data: searching for emergent properties of cellular systems. BMC Bioinformatics, 12.

Evans, M. R., Fink, R. C., Vazquez-Torres, A., Porwollik, S., Jones-Carson, J., McClelland, M., & Hassan, H. M. (2011). Analysis of the ArcA regulon in anaerobically grown Salmonella enterica sv. Typhimurium. BMC MICROBIOLOGY, 11. https://doi.org/10.1186/1471-2180-11-58

Zhou, R., Benavente, L. M., Stepanova, A. N., & Alonso, J. M. (2011). A recombineering-based gene tagging system for Arabidopsis. PLANT JOURNAL, 66(4), 712–723. https://doi.org/10.1111/j.1365-313X.2011.04524.x

Whipple, C. J., Kebrom, T. H., Weber, A. L., Yang, F., Hall, D., Meeley, R., … Jackson, D. P. (2011). grassy tillers1 promotes apical dominance in maize and responds to shade signals in the grasses. Proceedings of the National Academy of Sciences of the United States of America, 108(33), E506–512.

Feng, C.-M., Xiang, Q.-Y., & Franks, R. G. (2011). Phylogeny-based developmental analyses illuminate evolution of inflorescence architectures in dogwoods (Cornus s. l., Cornaceae). NEW PHYTOLOGIST, 191(3), 850–869. https://doi.org/10.1111/j.1469-8137.2011.03716.x

Carbone, M. A., Chen, Y., Hughes, G. A., Weinreb, R. N., Zabriskie, N. A., Zhang, K., & Anholt, R. R. H. (2011). Genes of the Unfolded Protein Response Pathway Harbor Risk Alleles for Primary Open Angle Glaucoma. PLOS ONE, 6(5). https://doi.org/10.1371/journal.pone.0020649

Threadgill, D. W., Miller, D. R., Churchill, G. A., & Villena, F. P.-M. (2011). The Collaborative Cross: A Recombinant Inbred Mouse Population for the Systems Genetic Era. ILAR JOURNAL, 52(1), 24–31. https://doi.org/10.1093/ilar.52.1.24

Concha, C., Belikoff, E. J., Carey, B.-lee, Li, F., Schiemann, A. H., & Scott, M. J. (2011). Efficient germ-line transformation of the economically important pest species Lucilia cuprina and Lucilia sericata (Diptera, Calliphoridae). Insect Biochemistry and Molecular Biology, 41(1), 70–75. https://doi.org/10.1016/j.ibmb.2010.09.006

Mohamadzadeh, M., Pfeiler, E. A., Brown, J. B., Zadeh, M., Gramarossa, M., Managlia, E., … Klaenhammer, T. R. (2011). Regulation of induced colonic inflammation by Lactobacillus acidophilus deficient in lipoteichoic acid. PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA, 108, 4623–4630. https://doi.org/10.1073/pnas.1005066107

Duarte, C. W., & Zeng, Z.-B. (2011). High-Confidence Discovery of Genetic Network Regulators in Expression Quantitative Trait Loci Data. GENETICS, 187(3), 955–964. https://doi.org/10.1534/genetics.110.124685

Gordon, J. I., & Klaenhammer, T. R. (2011, March 15). A rendezvous with our microbes. PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA, Vol. 108, pp. 4513–4515. https://doi.org/10.1073/pnas.1101958108

Bradford, B. U., Lock, E. F., Kosyk, O., Kim, S., Uehara, T., Harbourt, D., … Rusyn, I. (2011). Interstrain Differences in the Liver Effects of Trichloroethylene in a Multistrain Panel of Inbred Mice. TOXICOLOGICAL SCIENCES, 120(1), 206–217. https://doi.org/10.1093/toxsci/kfq362

Kim, K., Lee, H., Threadgill, D. W., & Lee, D. (2011). Epiregulin-dependent amphiregulin expression and ERBB2 signaling are involved in luteinizing hormone-induced paracrine signaling pathways in mouse ovary. BIOCHEMICAL AND BIOPHYSICAL RESEARCH COMMUNICATIONS, 405(2), 319–324. https://doi.org/10.1016/j.bbrc.2011.01.039

Myers, R. A., Casals, F., Gauthier, J., Hamdan, F. F., Keebler, J., Boyko, A. R., … Stone, E. A. (2011). A population genetic approach to mapping neurological disorder genes using deep resequencing. PLoS Genetics, 7(2).

Scott, M. J., Atapattu, A., Schiemann, A. H., Concha, C., Henry, R., Carey, B.-lee, … Sarkar, A. (2011). Organisation and expression of a cluster of yolk protein genes in the Australian sheep blowfly, Lucilia cuprina. GENETICA, 139(1), 63–70. https://doi.org/10.1007/s10709-010-9492-6

Ji, Y., Hebbring, S., Zhu, H., Jenkins, G. D., Biernacka, J., Snyder, K., … Weinshilboum, R. M. (2011). Glycine and a Glycine Dehydrogenase (GLDC) SNP as Citalopram/Escitalopram Response Biomarkers in Depression: Pharmacometabolomics-Informed Pharmacogenomics. CLINICAL PHARMACOLOGY & THERAPEUTICS, 89(1), 97–104. https://doi.org/10.1038/clpt.2010.250

Tian, F., Bradbury, P. J., Brown, P. J., Hung, H., Sun, Q., Flint-Garcia, S., … Buckler, E. S. (2011). Genome-wide association study of leaf architecture in the maize nested association mapping population. NATURE GENETICS, 43(2), 159–U113. https://doi.org/10.1038/ng.746

Troxell, B., Sikes, M. L., Fink, R. C., Vazquez-Torres, A., Jones-Carson, J., & Hassan, H. M. (2011). Fur Negatively Regulates hns and Is Required for the Expression of HilA and Virulence in Salmonella enterica Serovar Typhimurium. JOURNAL OF BACTERIOLOGY, 193(2), 497–505. https://doi.org/10.1128/jb.00942-10

Nash, T. E., Dallas, M. B., Reyes, M. I., Buhrman, G. K., Ascencio-Ibanez, J. T., & Hanley-Bowdoin, L. (2011). Functional Analysis of a Novel Motif Conserved across Geminivirus Rep Proteins. JOURNAL OF VIROLOGY, 85(3), 1182–1192. https://doi.org/10.1128/jvi.02143-10

Canner, J. E., & Spence, M. (2011). A new technique using metal tags to track small seeds over short distances. Ecological Research, 26(1), 233–236.