Genetics - 2013

Scott, M. J., Pimsler, M. L., & Tarone, A. M. (2013). Sex determination mechanisms in the Calliphoridae (blow flies). Sexual Development, 8(1-3), 29–37.

Hill, K., Mathews, D. E., Kim, H. J., Street, I. H., Wildes, S. L., Chiang, Y.-H., … Schaller, G. E. (2013). Functional Characterization of Type-B Response Regulators in the Arabidopsis Cytokinin Response
 
 . Plant Physiology, 162(1), 212–224. https://doi.org/10.1104/pp.112.208736

Franck, C. T., Nielsen, D. M., & Osborne, J. A. (2013). A method for detecting hidden additivity in two-factor unreplicated experiments. Computational Statistics & Data Analysis, 67, 95–104. https://doi.org/10.1016/j.csda.2013.05.002

Merchante, K., Hu, Q., Stepanova, A. N., Eonso, J. M., & Heber, S. (2013). Deep sequencing of ribosomal footprints for studying genome-wide mRNA translation in plants. 2013 IEEE 3rd International Conference on Computational Advances in Bio and Medical Sciences, ICCABS 2013. https://doi.org/10.1109/ICCABS.2013.6629221

Robles, L., Stepanova, A., & Alonso, J. (2013). Molecular mechanisms of ethylene–auxin interactions. Molecular Plant, sst113.

Huang, L., Zhang, H. H., Zeng, Z.-B., & Bushel, P. R. (2013). Improved Sparse Multi-Class SVM and Its Application for Gene Selection in Cancer Classification. Cancer Informatics, 12, CIN.S10212. https://doi.org/10.4137/cin.s10212

Liu, J., Franks, R. G., Feng, C.-M., Liu, X., Fu, C.-X., & Xiang, Q.-Y. (2013). Characterization of the sequence and expression pattern of LFY homologues from dogwood species (Cornus) with divergent inflorescence architectures. Annals of Botany, 112(8), 1629–1641. https://doi.org/10.1093/aob/mct202

Call, E. K., & Klaenhammer, T. R. (2013). [Review of Relevance and application of sortase and sortase-dependent proteins in lactic acid bacteria]. FRONTIERS IN MICROBIOLOGY, 4. https://doi.org/10.3389/fmicb.2013.00073

Bautz, D. J., Broman, K. W., & Threadgill, D. W. (2013). Identification of a Novel Polymorphism in X-Linked Sterol-4-Alpha-Carboxylate 3-Dehydrogenase (Nsdhl) Associated with Reduced High-Density Lipoprotein Cholesterol Levels in I/LnJ Mice. G3-GENES GENOMES GENETICS, 3(10), 1819–1825. https://doi.org/10.1534/g3.113.007567

Fitzsimons, H. L., Schwartz, S., Given, F. M., & Scott, M. J. (2013). The Histone Deacetylase HDAC4 Regulates Long-Term Memory in Drosophila. PLoS ONE, 8(12), e83903. https://doi.org/10.1371/journal.pone.0083903

Savaiano, D. A., Ritter, A. J., Klaenhammer, T. R., James, G. M., Longcore, A. T., Chandler, J. R., … Foyt, H. L. (2013). Improving lactose digestion and symptoms of lactose intolerance with a novel galacto-oligosaccharide (RP-G28): a randomized, double-blind clinical trial. NUTRITION JOURNAL, 12. https://doi.org/10.1186/1475-2891-12-160

Johnson, B., Selle, K., O'Flaherty, S., Goh, Y. J., & Klaenhammer, T. (2013). Identification of extracellular surface-layer associated proteins in Lactobacillus acidophilus NCFM. MICROBIOLOGY-SGM, 159, 2269–2282. https://doi.org/10.1099/mic.0.070755-0

Zhang, J., Franks, R. G., Liu, X., Kang, M., Keebler, J. E. M., Schaff, J. E., … Xiang, Q.-Y. (2013). De novo Sequencing, Characterization, and Comparison of Inflorescence Transcriptomes of Cornus canadensis and C. florida (Cornaceae). PLOS ONE, 8(12). https://doi.org/10.1371/journal.pone.0082674

Romay, M. C., Millard, M. J., Glaubitz, J. C., Peiffer, J. A., Swarts, K. L., Casstevens, T. M., … Gardner, C. A. (2013). Comprehensive genotyping of the USA national maize inbred seed bank. GENOME BIOLOGY, 14(6). https://doi.org/10.1186/gb-2013-14-6-r55

Pietra, S., Gustavsson, A., Kiefer, C., Kalmbach, L., Horstedt, P., Ikeda, Y., … Grebe, M. (2013). Arabidopsis SABRE and CLASP interact to stabilize cell division plane orientation and planar polarity. NATURE COMMUNICATIONS, 4. https://doi.org/10.1038/ncomms3779

Petschow, B., Dore, J., Hibberd, P., Dinan, T., Reid, G., Blaser, M., … Sanders, M. E. (2013). Probiotics, prebiotics, and the host microbiome: the science of translation. ANNALS REPORTS, 1306, 1–17. https://doi.org/10.1111/nyas.12303

DeSimone, M. C., Rathmell, W. K., & Threadgill, D. W. (2013). Pleiotropic Effects of the Trichloroethylene-Associated P81S VHL Mutation on Metabolism, Apoptosis, and ATM-Mediated DNA Damage Response. JNCI-JOURNAL OF THE NATIONAL CANCER INSTITUTE, 105(18), 1355–1364. https://doi.org/10.1093/jnci/djt226

Robles, L., Stepanova, A., & Alonso, J. (2013). Molecular Mechanisms of EthyleneAuxin Interaction. MOLECULAR PLANT, 6(6), 1734–1737. https://doi.org/10.1093/mp/sst113

Robert, H. S., Grones, P., Stepanova, A. N., Robles, L. M., Lokerse, A. S., Alonso, J. M., … Friml, J. (2013). Local Auxin Sources Orient the Apical-Basal Axis in Arabidopsis Embryos. CURRENT BIOLOGY, 23(24), 2506–2512. https://doi.org/10.1016/j.cub.2013.09.039

Merchante, C., Alonso, J. M., & Stepanova, A. N. (2013). [Review of Ethylene signaling: simple ligand, complex regulation]. CURRENT OPINION IN PLANT BIOLOGY, 16(5), 554–560. https://doi.org/10.1016/j.pbi.2013.08.001

Andersen, J. M., Barrangou, R., Abou Hachem, M., Lahtinen, S. J., Goh, Y. J., Svensson, B., & Klaenhammer, T. R. (2013). Transcriptional analysis of oligosaccharide utilization by Bifidobacterium lactis Bl-04. BMC GENOMICS, 14. https://doi.org/10.1186/1471-2164-14-312

Heffer, A., Grubbs, N., Mahaffey, J., & Pick, L. (2013). [Review of The evolving role of the orphan nuclear receptor ftz-f1, a pair-rule segmentation gene]. EVOLUTION & DEVELOPMENT, 15(6), 406–417. https://doi.org/10.1111/ede.12050

Dolezal, A. L., Obrian, G. R., Nielsen, D. M., Woloshuk, C. P., Boston, R. S., & Payne, G. A. (2013). Localization, morphology and transcriptional profile of Aspergillus flavus during seed colonization. MOLECULAR PLANT PATHOLOGY, 14(9), 898–909. https://doi.org/10.1111/mpp.12056

Supple, M. A., Hines, H. M., Dasmahapatra, K. K., Lewis, J. J., Nielsen, D. M., Lavoie, C., … Counterman, B. A. (2013). Genomic architecture of adaptive color pattern divergence and convergence in Heliconius butterflies. GENOME RESEARCH, 23(8), 1248–1257. https://doi.org/10.1101/gr.150615.112

Selle, K., & Klaenhammer, T. R. (2013). [Review of Genomic and phenotypic evidence for probiotic influences of Lactobacillus gasseri on human health]. FEMS MICROBIOLOGY REVIEWS, 37(6), 915–935. https://doi.org/10.1111/1574-6976.12021

Singh, N. D., Stone, E. A., Aquadro, C. F., & Clark, A. G. (2013). Fine-scale heterogeneity in crossover rate in the garnet-scalloped region of the Drosophila melanogaster X chromosome. Genetics, 194(2), 375–112.

Guo, L., Tsai, S. Q., Hardison, N. E., James, A. H., Motsinger-Reif, A. A., Thames, B., … Piedrahita, J. A. (2013). Differentially expressed microRNAs and affected biological pathways revealed by modulated modularity clustering (MMC) analysis of human preeclamptic and IUGR placentas. PLACENTA, 34(7), 599–605. https://doi.org/10.1016/j.placenta.2013.04.007

Larsson, E., Franks, R. G., & Sundberg, E. (2013). [Review of Auxin and the Arabidopsis thaliana gynoecium]. JOURNAL OF EXPERIMENTAL BOTANY, 64(9), 2619–2627. https://doi.org/10.1093/jxb/ert099

Moore, G. G., Elliott, J. L., Singh, R., Horn, B. W., Dorner, J. W., Stone, E. A., … Carbone, I. (2013). Sexuality Generates Diversity in the Aflatoxin Gene Cluster: Evidence on a Global Scale. PLOS PATHOGENS, 9(8). https://doi.org/10.1371/journal.ppat.1003574

Moore, E. C., & Roberts, R. B. (2013, June 17). Polygenic sex determination. CURRENT BIOLOGY, Vol. 23, pp. R510–R512. https://doi.org/10.1016/j.cub.2013.04.004

Reyes, M. I., Nash, T. E., Dallas, M. M., Ascencio-Ibanez, J. T., & Hanley-Bowdoin, L. (2013). Peptide Aptamers That Bind to Geminivirus Replication Proteins Confer a Resistance Phenotype to Tomato Yellow Leaf Curl Virus and Tomato Mottle Virus Infection in Tomato. JOURNAL OF VIROLOGY, 87(17), 9691–9706. https://doi.org/10.1128/jvi.01095-13

Richards, K. L., Motsinger-Reif, A. A., Chen, H.-W., Fedoriw, Y., Fan, C., Nielsen, D. M., … Suter, S. E. (2013). Gene Profiling of Canine B-Cell Lymphoma Reveals Germinal Center and Postgerminal Center Subtypes with Different Survival Times, Modeling Human DLBCL. CANCER RESEARCH, 73(16), 5029–5039. https://doi.org/10.1158/0008-5472.can-12-3546

Ivey, M., Massel, M., & Phister, T. G. (2013). [Review of Microbial interactions in food fermentations]. Annual review of food science and technology, vol 4, 4, 141–162.

Hanley-Bowdoin, L., Bejarano, E. R., Robertson, D., & Mansoor, S. (2013). [Review of Geminiviruses: masters at redirecting and reprogramming plant processes]. NATURE REVIEWS MICROBIOLOGY, 11(11), 777–788. https://doi.org/10.1038/nrmicro3117

Goh, Y. J., & Klaenhammer, T. R. (2013). A functional glycogen biosynthesis pathway in Lactobacillus acidophilus: expression and analysis of the glg operon. MOLECULAR MICROBIOLOGY, 89(6), 1187–1200. https://doi.org/10.1111/mmi.12338

Peiffer, J. A., Flint-Garcia, S. A., De Leon, N., McMullen, M. D., Kaeppler, S. M., & Buckler, E. S. (2013). The genetic architecture of maize stalk strength. PLoS One, 8(6).

Abou Hachem, M., Andersen, J. M., Barrangou, R., Moller, M. S., Fredslund, F., Majumder, A., … Svensson, B. (2013). [Review of Recent insight into oligosaccharide uptake and metabolism in probiotic bacteria]. BIOCATALYSIS AND BIOTRANSFORMATION, 31(4), 226–235. https://doi.org/10.3109/10242422.2013.828048

Ferris, M. T., Aylor, D. L., Bottomly, D., Whitmore, A. C., Aicher, L. D., Bell, T. A., … Heise, M. T. (2013). Modeling Host Genetic Regulation of Influenza Pathogenesis in the Collaborative Cross. PLOS PATHOGENS, 9(2). https://doi.org/10.1371/journal.ppat.1003196

Driver, A. M., Huang, W., Kropp, J., Penagaricano, F., & Khatib, H. (2013). Knockdown of CDKN1C (p57(kip2)) and PHLDA2 results in developmental changes in bovine pre-implantation embryos. PLoS One, 8(7).

Anholt, R. R. H., & Carbone, M. A. (2013). [Review of A molecular mechanism for glaucoma: endoplasmic reticulum stress and the unfolded protein response]. TRENDS IN MOLECULAR MEDICINE, 19(10), 586–593. https://doi.org/10.1016/j.molmed.2013.06.005

Grubbs, N., Leach, M., Su, X., Petrisko, T., Rosario, J. B., & Mahaffey, J. W. (2013). New Components of Drosophila Leg Development Identified through Genome Wide Association Studies. PLOS ONE, 8(4). https://doi.org/10.1371/journal.pone.0060261

Harbison, S. T., McCoy, L. J., & Mackay, T. F. C. (2013). Genome-wide association study of sleep in Drosophila melanogaster. BMC Genomics, 14.

Su, Y., Nielsen, D., Zhu, L., Richards, K., Suter, S., Breen, M., … Osborne, J. (2013). Gene selection and cancer type classification of diffuse large-B-cell lymphoma using a bivariate mixture model for two-species data. Hum Genomics, 7, 2.

Li, F., Vensko, S. P., Belikoff, E. J., & Scott, M. J. (2013). Conservation and Sex-Specific Splicing of the transformer Gene in the Calliphorids Cochliomyia hominivorax, Cochliomyia macellaria and Lucilia sericata. PLoS ONE, 8(2), e56303. https://doi.org/10.1371/journal.pone.0056303

Neufert, C., Becker, C., Tuereci, O., Waldner, M. J., Backert, I., Floh, K., … Neurath, M. F. (2013). Tumor fibroblast-derived epiregulin promotes growth of colitis-associated neoplasms through ERK. JOURNAL OF CLINICAL INVESTIGATION, 123(4), 1428–1443. https://doi.org/10.1172/jci63748

Kopycki, J., Wieduwild, E., Kohlschmidt, J., Brandt, W., Stepanova, A. N., Alonso, J. M., … Grubb, C. D. (2013). Kinetic analysis of Arabidopsis glucosyltransferase UGT74B1 illustrates a general mechanism by which enzymes can escape product inhibition. BIOCHEMICAL JOURNAL, 450(1), 37–46. https://doi.org/10.1042/bj20121403

Stein, S., Ware, J., Laboy, J., & Schaffer, H. E. (2013). Improving K-12 pedagogy via a Cloud designed for education. INTERNATIONAL JOURNAL OF INFORMATION MANAGEMENT, 33(1), 235–241. https://doi.org/10.1016/j.ijinfomgt.2012.07.009

Saito, K., Horiuchi, K., Kimura, T., Mizuno, S., Yoda, M., Morioka, H., … Sato, K. (2013). Conditional Inactivation of TNF alpha-Converting Enzyme in Chondrocytes Results in an Elongated Growth Plate and Shorter Long Bones. PLOS ONE, 8(1). https://doi.org/10.1371/journal.pone.0054853

McLamb, B. L., Gibson, A. J., Overman, E. L., Stahl, C., & Moeser, A. J. (2013). Early Weaning Stress in Pigs Impairs Innate Mucosal Immune Responses to Enterotoxigenic E. coli Challenge and Exacerbates Intestinal Injury and Clinical Disease. PLOS ONE, 8(4). https://doi.org/10.1371/journal.pone.0059838

Liu, X., Feng, C.-M., Franks, R. G., Qu, R., Xie, D.-Y., & Xiang, Q.-Y. (2013). Plant regeneration and genetic transformation of C. canadensis: A non-model plant appropriate for investigation of flower development in Cornus (Cornaceae). Plant Cell Reports, 32(1), 77–87. https://doi.org/10.1007/s00299-012-1341-x

Griffing, A. R., Lynch, B. R., & Stone, E. A. (2013). An eigenvector interlacing property of graphs that arise from trees by Schur complementation of the Laplacian. LINEAR ALGEBRA AND ITS APPLICATIONS, 438(3), 1078–1094. https://doi.org/10.1016/j.laa.2012.10.005

Singh, N. D., Jensen, J. D., Clark, A. G., & Aquadro, C. F. (2013). Inferences of Demography and Selection in an African Population of Drosophila melanogaster. GENETICS, 193(1), 215–228. https://doi.org/10.1534/genetics.112.145318