Search Results - "Arrieta‐Ortiz, Mario L"

An experimentally supported model of the Bacillus subtilis global transcriptional regulatory network by Arrieta‐Ortiz, Mario L, Hafemeister, Christoph, Bate, Ashley Rose, Chu, Timothy, Greenfield, Alex, Shuster, Bentley, Barry, Samantha N, Gallitto, Matthew, Liu, Brian, Kacmarczyk, Thadeous, Santoriello, Francis, Chen, Jie, Rodrigues, Christopher DA, Sato, Tsutomu, Rudner, David Z, Driks, Adam, Bonneau, Richard, Eichenberger, Patrick

“…Organisms from all domains of life use gene regulation networks to control cell growth, identity, function, and responses to environmental challenges. Although…”
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Path‐seq identifies an essential mycolate remodeling program for mycobacterial host adaptation by Peterson, Eliza JR, Bailo, Rebeca, Rothchild, Alissa C, Arrieta‐Ortiz, Mario L, Kaur, Amardeep, Pan, Min, Mai, Dat, Abidi, Abrar A, Cooper, Charlotte, Aderem, Alan, Bhatt, Apoorva, Baliga, Nitin S

“…The success of Mycobacterium tuberculosis (MTB) stems from its ability to remain hidden from the immune system within macrophages. Here, we report a new…”
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The type VI secretion system of Xanthomonas phaseoli pv. manihotis is involved in virulence and in vitro motility by Montenegro Benavides, Nathaly Andrea, Alvarez B, Alejandro, Arrieta-Ortiz, Mario L, Rodriguez-R, Luis Miguel, Botero, David, Tabima, Javier Felipe, Castiblanco, Luisa, Trujillo, Cesar, Restrepo, Silvia, Bernal, Adriana

“…The type VI protein secretion system (T6SS) is important in diverse cellular processes in Gram-negative bacteria, including interactions with other bacteria…”
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Intricate Genetic Programs Controlling Dormancy in Mycobacterium tuberculosis by Peterson, Eliza J.R., Abidi, Abrar A., Arrieta-Ortiz, Mario L., Aguilar, Boris, Yurkovich, James T., Kaur, Amardeep, Pan, Min, Srinivas, Vivek, Shmulevich, Ilya, Baliga, Nitin S.

“…Mycobacterium tuberculosis (MTB) displays the remarkable ability to transition in and out of dormancy, a hallmark of the pathogen’s capacity to evade the…”
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Mycobacterium abscessus biofilms produce an extracellular matrix and have a distinct mycolic acid profile by Dokic, Anja, Peterson, Eliza, Arrieta-Ortiz, Mario L., Pan, Min, Di Maio, Alessandro, Baliga, Nitin, Bhatt, Apoorva

“…A non-tuberculous mycobacterium, Mycobacterium abscessus is an emerging opportunistic pathogen associated with difficult to treat pulmonary infections,…”
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MtrA modulates Mycobacterium tuberculosis cell division in host microenvironments to mediate intrinsic resistance and drug tolerance by Peterson, Eliza J.R., Brooks, Aaron N., Reiss, David J., Kaur, Amardeep, Do, Julie, Pan, Min, Wu, Wei-Ju, Morrison, Robert, Srinivas, Vivek, Carter, Warren, Arrieta-Ortiz, Mario L., Ruiz, Rene A., Bhatt, Apoorva, Baliga, Nitin S.

“…The success of Mycobacterium tuberculosis (Mtb) is largely attributed to its ability to physiologically adapt and withstand diverse localized stresses within…”
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3D Hydrogel Culture System Recapitulates Key Tuberculosis Phenotypes and Demonstrates Pyrazinamide Efficacy by Gupta, Vishal K, Vaishnavi, Vijaya V, Arrieta-Ortiz, Mario L, P S, Abhirami, K M, Jyothsna, Jeyasankar, Sharumathi, Raghunathan, Varun, Baliga, Nitin S, Agarwal, Rachit

“…The mortality caused by tuberculosis (TB) infections is a global concern, and there is a need to improve understanding of the disease. Current in vitro…”
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Intricate Genetic Programs Controlling Dormancy in Mycobacterium tuberculosis by Peterson, Eliza J.R., Abidi, Abrar A., Arrieta-Ortiz, Mario L., Aguilar, Boris, Yurkovich, James T., Kaur, Amardeep, Pan, Min, Srinivas, Vivek, Shmulevich, Ilya, Baliga, Nitin S.

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Genomes-based phylogeny of the genus Xanthomonas by Rodriguez-R, Luis M, Grajales, Alejandro, Arrieta-Ortiz, Mario L, Salazar, Camilo, Restrepo, Silvia, Bernal, Adriana

“…The genus Xanthomonas comprises several plant pathogenic bacteria affecting a wide range of hosts. Despite the economic, industrial and biological importance…”
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Disrupting the ArcA Regulatory Network Amplifies the Fitness Cost of Tetracycline Resistance in Escherichia coli by Arrieta-Ortiz, Mario L, Pan, Min, Kaur, Amardeep, Pepper-Tunick, Evan, Srinivas, Vivek, Dash, Ananya, Immanuel, Selva Rupa Christinal, Brooks, Aaron N, Shepherd, Tyson R, Baliga, Nitin S

“…There is an urgent need for strategies to discover secondary drugs to prevent or disrupt antimicrobial resistance (AMR), which is causing >700,000 deaths…”
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Inference of Bacterial Small RNA Regulatory Networks and Integration with Transcription Factor-Driven Regulatory Networks by Arrieta-Ortiz, Mario L, Hafemeister, Christoph, Shuster, Bentley, Baliga, Nitin S, Bonneau, Richard, Eichenberger, Patrick

“…Small noncoding RNAs (sRNAs) are key regulators of bacterial gene expression. Through complementary base pairing, sRNAs affect mRNA stability and translation…”
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PerSort Facilitates Characterization and Elimination of Persister Subpopulation in Mycobacteria by Srinivas, Vivek, Arrieta-Ortiz, Mario L, Kaur, Amardeep, Peterson, Eliza J R, Baliga, Nitin S

“…(MTB) generates phenotypic diversity to persist and survive the harsh conditions encountered during infection. MTB avoids immune effectors and antibacterial…”
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Mathematical models to study the biology of pathogens and the infectious diseases they cause by Xavier, Joao B., Monk, Jonathan M., Poudel, Saugat, Norsigian, Charles J., Sastry, Anand V., Liao, Chen, Bento, Jose, Suchard, Marc A., Arrieta-Ortiz, Mario L., Peterson, Eliza J.R., Baliga, Nitin S., Stoeger, Thomas, Ruffin, Felicia, Richardson, Reese A.K., Gao, Catherine A., Horvath, Thomas D., Haag, Anthony M., Wu, Qinglong, Savidge, Tor, Yeaman, Michael R.

“…Mathematical models have many applications in infectious diseases: epidemiologists use them to forecast outbreaks and design containment strategies; systems…”
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Quantitative prediction of conditional vulnerabilities in regulatory and metabolic networks using PRIME by Immanuel, Selva Rupa Christinal, Arrieta-Ortiz, Mario L., Ruiz, Rene A., Pan, Min, Lopez Garcia de Lomana, Adrian, Peterson, Eliza J. R., Baliga, Nitin S.

“…The ability of Mycobacterium tuberculosis (Mtb) to adopt heterogeneous physiological states underlies its success in evading the immune system and tolerating…”
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In vivo commensal control of Clostridioides difficile virulence by Girinathan, Brintha P., DiBenedetto, Nicholas, Worley, Jay N., Peltier, Johann, Arrieta-Ortiz, Mario L., Immanuel, Selva Rupa Christinal, Lavin, Richard, Delaney, Mary L., Cummins, Christopher K., Hoffman, Maria, Luo, Yan, Gonzalez-Escalona, Narjol, Allard, Marc, Onderdonk, Andrew B., Gerber, Georg K., Sonenshein, Abraham L., Baliga, Nitin S., Dupuy, Bruno, Bry, Lynn

“…Leveraging systems biology approaches, we illustrate how metabolically distinct species of Clostridia protect against or worsen Clostridioides difficile…”
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Genetic manipulation of Patescibacteria provides mechanistic insights into microbial dark matter and the epibiotic lifestyle by Wang, Yaxi, Gallagher, Larry A., Andrade, Pia A., Liu, Andi, Humphreys, Ian R., Turkarslan, Serdar, Cutler, Kevin J., Arrieta-Ortiz, Mario L., Li, Yaqiao, Radey, Matthew C., McLean, Jeffrey S., Cong, Qian, Baker, David, Baliga, Nitin S., Peterson, S. Brook, Mougous, Joseph D.

“…Patescibacteria, also known as the candidate phyla radiation (CPR), are a diverse group of bacteria that constitute a disproportionately large fraction of…”
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Reconsidering the in vivo functions of Clostridial Stickland amino acid fermentations by Pavao, Aidan, Graham, Madeline, Arrieta-Ortiz, Mario L, Immanuel, Selva Rupa Christinal, Baliga, Nitin S, Bry, Lynn

“…Stickland amino acid fermentations occur primarily among species of Clostridia. An ancient form of metabolism, Stickland fermentations use amino acids as…”
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Predictive regulatory and metabolic network models for systems analysis of Clostridioides difficile by Arrieta-Ortiz, Mario L., Immanuel, Selva Rupa Christinal, Turkarslan, Serdar, Wu, Wei-Ju, Girinathan, Brintha P., Worley, Jay N., DiBenedetto, Nicholas, Soutourina, Olga, Peltier, Johann, Dupuy, Bruno, Bry, Lynn, Baliga, Nitin S.

“…We present predictive models for comprehensive systems analysis of Clostridioides difficile, the etiology of pseudomembranous colitis. By leveraging 151…”
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Antibody-recruiting protein-catalyzed capture agents to combat antibiotic-resistant bacteria by Idso, Matthew N, Akhade, Ajay Suresh, Arrieta-Ortiz, Mario L, Lai, Bert T, Srinivas, Vivek, Hopkins, James P, Gomes, Ana Oliveira, Subramanian, Naeha, Baliga, Nitin, Heath, James R

“…Antibiotic resistant infections are projected to cause over 10 million deaths by 2050, yet the development of new antibiotics has slowed. This points to an…”
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A systems-level gene regulatory network model for Plasmodium falciparum by Neal, Maxwell L, Wei, Ling, Peterson, Eliza, Arrieta-Ortiz, Mario L, Danziger, Samuel A, Baliga, Nitin S, Kaushansky, Alexis, Aitchison, John D

“…Abstract Many of the gene regulatory processes of Plasmodium falciparum, the deadliest malaria parasite, remain poorly understood. To develop a comprehensive…”
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