On July 1st, 2014 the departments of Biochemistry & Cell Biology (BCB) and Ecology & Evolutionary Biology (EEB) merged to form BioSciences at Rice. This merger unites faculty engaged in research and teaching in a wide range of disciplines throughout the life sciences, creating a vibrant and diverse community of scholars and educators housed within a single department. Learn more about the department at http://biosciences.rice.edu/default.aspx.

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Recent Submissions

  • Structure of a cupin protein Plu4264 from Photorhabdus luminescens subsp. laumondii TTO1 at 1.35 Å resolution 

    Weerth, R. Sophia; Michalska, Karolina; Bingman, Craig A.; Yennamalli, Ragothaman M.; Li, Hui; Jedrzejczak, Robert; Wang, Fengbin; Babnigg, Gyorgy; Joachimiak, Andrzej; Thomas, Michael G.; Phillips, George N. Jr. (2015)
    Proteins belonging to the cupin superfamily have a wide range of catalytic and noncatalytic functions. Cupin proteins commonly have the capacity to bind a metal ion with the metal frequently determining the function of the ...
  • Endothelial cells decode VEGF-mediated Ca2+ signaling patterns to produce distinct functional responses 

    Noren, David P.; Chou, Wesley H.; Lee, Sung Hoon; Qutub, Amina A.; Warmflash, Aryeh; Wagner, Daniel S.; Popel, Aleksander S.; Levchenko, Andre (2016)
    A single extracellular stimulus can promote diverse behaviors among isogenic cells by differentially regulated signaling networks. We examined Ca2+ signaling in response to VEGF (vascular endothelial growth factor), a ...
  • Ultrahigh-throughput generation and characterization of cellular aggregates in laser-ablated microwells of poly(dimethylsiloxane) 

    Albritton, Jacob L.; Roybal, Jonathon D.; Paulsen, Samantha J.; Calafat, Nick; Flores-Zaher, Jose A.; Farach-Carson, Mary C.; Gibbons, Don L.; Miller, Jordan S. (2016)
    Aggregates of cells, also known as multicellular aggregates (MCAs), have been used as microscale tissues in the fields of cancer biology, regenerative medicine, and developmental biology for many decades. However, small ...
  • A 3D inᅠvitro model of patient-derived prostate cancer xenograft for controlled interrogation of inᅠvivo tumor-stromal interactions 

    Fong, Eliza L.S.; Wan, Xinhai; Yang, Jun; Morgado, Micaela; Mikos, Antonios G.; Harrington, Daniel A.; Navone, Nora M.; Farach-Carson, Mary C. (2016)
    Patient-derived xenograft (PDX) models better represent human cancer than traditional cell lines. However, the complex in vivo environment makes it challenging to employ PDX models to investigate tumor-stromal interactions, ...
  • A rapid, flexible method for incorporating controlled antibiotic release into porous polymethylmethacrylate space maintainers for craniofacial reconstruction 

    Mountziaris, Paschalia M.; Shah, Sarita R.; Lam, Johnny; Bennett, George N.; Mikos, Antonios G. (2016)
    Severe injuries in the craniofacial complex, resulting from trauma or pathology, present several challenges to functional and aesthetic reconstruction. The anatomy and position of the craniofacial region make it vulnerable ...
  • Loop dynamics of thymidine diphosphate-rhamnose 3′-O-methyltransferase (CalS11), an enzyme in calicheamicin biosynthesis 

    Han, Lu; Singh, Shanteri; Thorson, Jon S.; Phillips, George N. Jr. (2016)
    Structure analysis and ensemble refinement of the apo-structure of thymidine diphosphate (TDP)-rhamnose 3′-O-methyltransferase reveal a gate for substrate entry and product release. TDP-rhamnose 3′-O-methyltransferase ...
  • Environmental DNA (eDNA) detects the invasive crayfishesᅠOrconectes rusticusᅠandᅠPacifastacus leniusculusᅠin large lakes of North America 

    Larson, Eric R.; Renshaw, Mark A.; Gantz, Crysta A.; Umek, John; Chandra, Sudeep; Lodge, David M.; Egan, Scott P. (2017)
    We report results of a study that made reciprocal comparisons of environmental DNA (eDNA) assays for two major invasive crayfishes between their disparate invasive ranges in North America. Specifically, we tested for range ...
  • New Light on the Systematics of Fungi Associated with Attine Ant Gardens and the Description ofᅠEscovopsis kreiseliiᅠsp. nov. 

    Meirelles, Lucas A.; Montoya, Quimi V.; Solomon, Scott E.; Rodrigues, Andre (2015)
    Since the formal description of fungi in the genus Escovopsis in 1990, only a few studies have focused on the systematics of this group. For more than two decades, only two Escovopsis species were described; however, in ...
  • An open-hardware platform for optogenetics and photobiology 

    Gerhardt, Karl P.; Olson, Evan J.; Castillo-Hair, Sebastian M.; Hartsough, Lucas A.; Landry, Brian P.; Ekness, Felix; Yokoo, Rayka; Gomez, Eric J.; Ramakrishnan, Prabha; Suh, Junghae; Savage, David F.; Tabor, Jeffrey J. (2016)
    In optogenetics, researchers use light and genetically encoded photoreceptors to control biological processes with unmatched precision. However, outside of neuroscience, the impact of optogenetics has been limited by a ...
  • The Role of Host Demographic Storage in the Ecological Dynamics of Heritable Symbionts 

    Bibian, Andrew J.; Rudgers, Jennifer A.; Miller, Tom E.X. (2016)
    Heritable symbioses are widespread and ecologically important. Many host organisms have complex life cycles that include diverse opportunities for symbionts to affect their host and be lost during development. Yet, existing ...
  • Crystal structure of SgcJ, an NTF2-like superfamily protein involved in biosynthesis of the nine-membered enediyne antitumor antibiotic C-1027 

    Huang, Tingting; Chang, Chin-Yuan; Lohman, Jeremy R.; Rudolf, Jeffrey D.; Kim, Youngchang; Chang, Changsoo; Yang, Dong; Ma, Ming; Yan, Xiaohui; Crnovcic, Ivana; Bigelow, Lance; Clancy, Shonda; Bingman, Craig A.; Yennamalli, Ragothaman M.; Babnigg, Gyorgy; Joachimiak, Andrzej; Phillips, George N. Jr.; Shen, Ben (2016)
    Comparative analysis of the enediyne biosynthetic gene clusters revealed sets of conserved genes serving as outstanding candidates for the enediyne core. Here we report the crystal structures of SgcJ and its homologue ...
  • Lowered pH Leads to Fusion Peptide Release and a Highly Dynamic Intermediate of Influenza Hemagglutinin 

    Lin, Xingcheng; Noel, Jeffrey K.; Wang, Qinghua; Ma, Jianpeng; Onuchic, José N. (2016)
    Hemagglutinin (HA), the membrane-bound fusion protein of the influenza virus, enables the entry of virus into host cells via a structural rearrangement. There is strong evidence that the primary trigger for this rearrangement ...
  • Stability of Systems with Stochastic Delays and Applications to Genetic Regulatory Networks 

    Gomez, Marcella M.; Sadeghpour, Mehdi; Bennett, Matthew R.; Orosz, Gábor; Murray, Richard M. (2016)
    The dynamics of systems with stochastically varying time delays are investigated in this paper. It is shown that the mean dynamics can be used to derive necessary conditions for the stability of equilibria of the stochastic ...
  • Environmental DNA (eDNA) detects the invasive rusty crayfish Orconectes rusticus at low abundances 

    Dougherty, Matthew M.; Larson, Eric R.; Renshaw, Mark A.; Gantz, Crysta A.; Egan, Scott P.; Erickson, Daniel M.; Lodge, David M. (2016)
    1. Early detection is invaluable for the cost-effective control and eradication of invasive species, yet many traditional sampling techniques are ineffective at the low population abundances found at the onset of the ...
  • Crystal Structure of the Human Astrovirus Capsid Protein 

    Toh, Yukimatsu; Harper, Justin; Dryden, Kelly A.; Yeager, Mark; Arias, Carlos F.; Méndez, Ernesto; Tao, Yizhi J. (2016)
    Human astrovirus (HAstV) is a leading cause of viral diarrhea in infants and young children worldwide. HAstV is a nonenveloped virus with a T=3 capsid and a positive-sense RNA genome. The capsid protein (CP) of HAstV is ...
  • Crystal Structure of the Zorbamycin-Binding Protein ZbmA, the Primary Self-Resistance Element in Streptomyces flavoviridis ATCC21892 

    Rudolf, Jeffrey D.; Bigelow, Lance; Chang, Changsoo; Cuff, Marianne E.; Lohman, Jeremy R.; Chang, Chin-Yuan; Ma, Ming; Yang, Dong; Clancy, Shonda; Babnigg, Gyorgy; Joachimiak, Andrzej; Phillips, George N. Jr.; Shen, Ben (2015)
    The bleomycins (BLMs), tallysomycins (TLMs), phleomycin, and zorbamycin (ZBM) are members of the BLM family of glycopeptide-derived antitumor antibiotics. The BLM-producing Streptomyces verticillus ATCC15003 and the ...
  • Sonic hedgehog delivery from self-assembled nanofiber hydrogels reduces the fibrotic response in models of erectile dysfunction 

    Choe, Shawn; Veliceasa, Dorina; Bond, Christopher W.; Harrington, Daniel A.; Stupp, Samuel I.; McVary, Kevin T.; Podlasek, Carol A. (2016)
    Erectile dysfunction (ED) is a serious medical condition in which current treatments are ineffective in prostatectomy and diabetic patients, due to injury to the cavernous nerve (CN), which causes irreversible remodeling ...
  • Data publication with the structural biology data grid supports live analysis 

    Meyer, Peter A.; Socias, Stephanie; Key, Jason; Ransey, Elizabeth; Tjon, Emily C.; Buschiazzo, Alejandro; Lei, Ming; Botka, Chris; Withrow, James; Neau, David; Rajashankar, Kanagalaghatta; Anderson, Karen S.; Baxter, Richard H.; Blacklow, Stephen C.; Boggon, Titus J.; Bonvin, Alexandre M.J.J.; Borek, Dominika; Brett, Tom J.; Caflisch, Amedeo; Chang, Chung-I; Chazin, Walter J.; Corbett, Kevin D.; Cosgrove, Michael S.; Crosson, Sean; Dhe-Paganon, Sirano; Di Cera, Enrico; Drennan, Catherine L.; Eck, Michael J.; Eichman, Brandt F.; Fan, Qing R.; Ferré-D'Amaré, Adrian R.; Fromme, J. Christopher; Garcia, K. Christopher; Gaudet, Rachelle; Gong, Peng; Harrison, Stephen C.; Heldwein, Ekaterina E.; Jia, Zongchao; Keenan, Robert J.; Kruse, Andrew C.; Kvansakul, Marc; McLellan, Jason S.; Modis, Yorgo; Nam, Yunsun; Otwinowski, Zbyszek; Pai, Emil F.; Pereira, Pedro José Barbosa; Petosa, Carlo; Raman, C.S.; Rapoport, Tom A.; Roll-Mecak, Antonina; Rosen, Michael K.; Rudenko, Gabby; Schlessinger, Joseph; Schwartz, Thomas U.; Shamoo, Yousif; Sondermann, Holger; Tao, Yizhi J.; Tolia, Niraj H.; Tsodikov, Oleg V.; Westover, Kenneth D.; Wu, Hao; Foster, Ian; Fraser, James S.; Maia, Filipe R.N.C.; Gonen, Tamir; Kirchhausen, Tom; Diederichs, Kay; Crosas, Mercè; Sliz, Piotr (2016)
    Access to experimental X-ray diffraction image data is fundamental for validation and reproduction of macromolecular models and indispensable for development of structural biology processing methods. Here, we established ...
  • A magnesium-induced triplex pre-organizes the SAM-II riboswitch 

    Roy, Susmita; Lammert, Heiko; Hayes, Ryan L.; Chen, Bin; LeBlanc, Regan; Dayie, T. Kwaku; Onuchic, José N.; Sanbonmatsu, Karissa Y. (2017)
    Our 13C- and 1H-chemical exchange saturation transfer (CEST) experiments previously revealed a dynamic exchange between partially closed and open conformations of the SAM-II riboswitch in the absence of ligand. Here, ...
  • Interrogating the topological robustness of gene regulatory circuits by randomization 

    Huang, Bin; Lu, Mingyang; Jia, Dongya; Ben-Jacob, Eshel; Levine, Herbert; Onuchic, José N. (2017)
    One of the most important roles of cells is performing their cellular tasks properly for survival. Cells usually achieve robust functionality, for example, cell-fate decision-making and signal transduction, through multiple ...

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