Buforin II-Escherichia coli's DNA interactome: Routes to elucidate the molecular mechanisms of its antimicrobial activity

The increase of multi-resistant bacteria in the last decade has become a global health issue that requires the development of alternative treatments. Antimicrobial peptides are of great interest due to their high effectiveness and differential mechanisms.Buforin II (BUFII) is a 21 amino acid antibac...

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Autores:
Rubio Olaya, Daniela
Tipo de recurso:
Fecha de publicación:
2021
Institución:
Universidad de los Andes
Repositorio:
Séneca: repositorio Uniandes
Idioma:
spa
OAI Identifier:
oai:repositorio.uniandes.edu.co:1992/55090
Acceso en línea:
http://hdl.handle.net/1992/55090
Palabra clave:
Buforin II
Peptide
Interactome
Nanobioconjugate
Escherichia coli
Ingeniería
Rights
openAccess
License
http://creativecommons.org/licenses/by-nc-nd/4.0/
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network_acronym_str UNIANDES2
network_name_str Séneca: repositorio Uniandes
repository_id_str
dc.title.eng.fl_str_mv Buforin II-Escherichia coli's DNA interactome: Routes to elucidate the molecular mechanisms of its antimicrobial activity
title Buforin II-Escherichia coli's DNA interactome: Routes to elucidate the molecular mechanisms of its antimicrobial activity
spellingShingle Buforin II-Escherichia coli's DNA interactome: Routes to elucidate the molecular mechanisms of its antimicrobial activity
Buforin II
Peptide
Interactome
Nanobioconjugate
Escherichia coli
Ingeniería
title_short Buforin II-Escherichia coli's DNA interactome: Routes to elucidate the molecular mechanisms of its antimicrobial activity
title_full Buforin II-Escherichia coli's DNA interactome: Routes to elucidate the molecular mechanisms of its antimicrobial activity
title_fullStr Buforin II-Escherichia coli's DNA interactome: Routes to elucidate the molecular mechanisms of its antimicrobial activity
title_full_unstemmed Buforin II-Escherichia coli's DNA interactome: Routes to elucidate the molecular mechanisms of its antimicrobial activity
title_sort Buforin II-Escherichia coli's DNA interactome: Routes to elucidate the molecular mechanisms of its antimicrobial activity
dc.creator.fl_str_mv Rubio Olaya, Daniela
dc.contributor.advisor.none.fl_str_mv Cruz Jiménez, Juan Carlos
dc.contributor.author.spa.fl_str_mv Rubio Olaya, Daniela
dc.contributor.jury.spa.fl_str_mv Bloch Morel, Natasha Ivonne
González Barrios, Andrés Fernando
dc.subject.keyword.none.fl_str_mv Buforin II
Peptide
Interactome
Nanobioconjugate
Escherichia coli
topic Buforin II
Peptide
Interactome
Nanobioconjugate
Escherichia coli
Ingeniería
dc.subject.themes.none.fl_str_mv Ingeniería
description The increase of multi-resistant bacteria in the last decade has become a global health issue that requires the development of alternative treatments. Antimicrobial peptides are of great interest due to their high effectiveness and differential mechanisms.Buforin II (BUFII) is a 21 amino acid antibacterial peptide that is thought to kill bacteria by entering across the membrane and interacting with intracellular molecules that are possibly involved in vital mechanisms. However, these specific interactions are still unknown, and thus far no reports are available in targeted regions or DNA sequences associated with bacterial death. Here, we proposed a study of the interaction between BUFII and the DNA of Escherichia coli using molecular, spectroscopic and microscopic techniques, complemented with whole genome sequencing. We developed an in vitro method to identify the Escherichia coli DNA interactome with BUFII using the BUFII-magnetite nanobioconjugates. This approach allows taking advantage of the strong magnetic response of the conjugates to isolate the interacting moieties. The complete biophysical study conducted here allowed us to put forward the notion that BUFII interacts with DNA very strongly most likely due to electrostatic interactions. As a result, the BUFII-DNA pair can form spherical supramolecular complexes with nanoscale dimensions where DNA is likely supercoiled. The pull-down approach introduced here along with the complementary biophysical techniques might be helpful to improve the rational peptide design and discovery by providing a more robust set of recommendations regarding the targeted interactions with bacterial components responsible for resistance.
publishDate 2021
dc.date.issued.none.fl_str_mv 2021
dc.date.accessioned.none.fl_str_mv 2022-02-22T19:50:23Z
dc.date.available.none.fl_str_mv 2022-02-22T19:50:23Z
dc.type.spa.fl_str_mv Trabajo de grado - Maestría
dc.type.driver.spa.fl_str_mv info:eu-repo/semantics/masterThesis
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status_str acceptedVersion
dc.identifier.uri.none.fl_str_mv http://hdl.handle.net/1992/55090
dc.identifier.pdf.spa.fl_str_mv 25650.pdf
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dc.identifier.reponame.spa.fl_str_mv reponame:Repositorio Institucional Séneca
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identifier_str_mv 25650.pdf
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dc.format.extent.spa.fl_str_mv 15 páginas
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dc.publisher.spa.fl_str_mv Universidad de los Andes
dc.publisher.program.spa.fl_str_mv Maestría en Ingeniería Biomédica
dc.publisher.faculty.spa.fl_str_mv Facultad de Ingeniería
dc.publisher.department.spa.fl_str_mv Departamento de Ingeniería Biomédica
institution Universidad de los Andes
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spelling Al consultar y hacer uso de este recurso, está aceptando las condiciones de uso establecidas por los autores.http://creativecommons.org/licenses/by-nc-nd/4.0/info:eu-repo/semantics/openAccesshttp://purl.org/coar/access_right/c_abf2Cruz Jiménez, Juan Carlosvirtual::14774-1Rubio Olaya, Daniela776d20f3-87e4-4c26-9f8c-a63f7d5ef170500Bloch Morel, Natasha IvonneGonzález Barrios, Andrés Fernando2022-02-22T19:50:23Z2022-02-22T19:50:23Z2021http://hdl.handle.net/1992/5509025650.pdfinstname:Universidad de los Andesreponame:Repositorio Institucional Sénecarepourl:https://repositorio.uniandes.edu.co/The increase of multi-resistant bacteria in the last decade has become a global health issue that requires the development of alternative treatments. Antimicrobial peptides are of great interest due to their high effectiveness and differential mechanisms.Buforin II (BUFII) is a 21 amino acid antibacterial peptide that is thought to kill bacteria by entering across the membrane and interacting with intracellular molecules that are possibly involved in vital mechanisms. However, these specific interactions are still unknown, and thus far no reports are available in targeted regions or DNA sequences associated with bacterial death. Here, we proposed a study of the interaction between BUFII and the DNA of Escherichia coli using molecular, spectroscopic and microscopic techniques, complemented with whole genome sequencing. We developed an in vitro method to identify the Escherichia coli DNA interactome with BUFII using the BUFII-magnetite nanobioconjugates. This approach allows taking advantage of the strong magnetic response of the conjugates to isolate the interacting moieties. The complete biophysical study conducted here allowed us to put forward the notion that BUFII interacts with DNA very strongly most likely due to electrostatic interactions. As a result, the BUFII-DNA pair can form spherical supramolecular complexes with nanoscale dimensions where DNA is likely supercoiled. The pull-down approach introduced here along with the complementary biophysical techniques might be helpful to improve the rational peptide design and discovery by providing a more robust set of recommendations regarding the targeted interactions with bacterial components responsible for resistance.El aumento de las bacterias multirresistentes en la última década se ha convertido en un problema sanitario a nivel mundial que requiere el desarrollo de tratamientos alternativos. Los péptidos antimicrobianos son de gran interés debido a su gran eficacia y a sus mecanismos diferenciales. Buforina II (BUFII) es un péptido antibacteriano de 21 aminoácidos que se cree que mata a las bacterias entrando a través de la membrana e interactuando con moléculas intracelulares implicadas en mecanismos vitales. Sin embargo, estas interacciones específicas aún se desconocen, y hasta el momento no se dispone de información asociada a la muerte bacteriana. Aquí proponemos un estudio de la interacción entre BUFII y el ADN de Escherichia coli utilizando técnicas moleculares, espectroscópicas y microscópicas, complementadas con la secuenciación de nueva generación. Desarrollamos un método in vitro para identificar el interactoma de ADN de Escherichia coli con BUFII utilizando los nanobioconjugados BUFII-magnetita. Este enfoque permite aprovechar la fuerte respuesta magnética de los conjugados para aislar las partes interactuantes. El estudio biofísico completo realizado aquí nos permitió plantear la noción de que el BUFII interactúa con el ADN muy fuertemente, probablemente debido a interacciones electrostáticas. Como resultado, la interacción entre BUFII y ADN puede formar complejos supramoleculares esféricos con dimensiones a nanoescala en los que el ADN está probablemente superenrollado. El enfoque de pull-down introducido aquí, junto con las técnicas biofísicas complementarias, podría ser útil para mejorar el diseño y el descubrimiento racional de péptidos, proporcionando un conjunto más robusto de recomendaciones sobre las interacciones dirigidas con los componentes bacterianos responsables de la resistencia.Magíster en Ingeniería BiomédicaMaestría15 páginasapplication/pdfspaUniversidad de los AndesMaestría en Ingeniería BiomédicaFacultad de IngenieríaDepartamento de Ingeniería BiomédicaBuforin II-Escherichia coli's DNA interactome: Routes to elucidate the molecular mechanisms of its antimicrobial activityTrabajo de grado - Maestríainfo:eu-repo/semantics/masterThesisinfo:eu-repo/semantics/acceptedVersionTexthttp://purl.org/redcol/resource_type/TMBuforin IIPeptideInteractomeNanobioconjugateEscherichia coliIngeniería201512403Publication10c65e28-e393-4bfe-91e5-f3a7d32e6771virtual::14774-110c65e28-e393-4bfe-91e5-f3a7d32e6771virtual::14774-1THUMBNAIL25650.pdf.jpg25650.pdf.jpgIM Thumbnailimage/jpeg27076https://repositorio.uniandes.edu.co/bitstreams/7cc33c3b-2888-4c78-9862-4dcfb82d3bc1/download36a32ecf4b0a30c063d7a6704a1f973bMD53ORIGINAL25650.pdfapplication/pdf3786802https://repositorio.uniandes.edu.co/bitstreams/3102f302-0c4f-449c-9a29-fde7bcaa7484/download94d28467ea6a7902de29776df2a3220eMD51TEXT25650.pdf.txt25650.pdf.txtExtracted texttext/plain71941https://repositorio.uniandes.edu.co/bitstreams/4e36638f-9e3e-4ed2-b270-dc20128af377/downloadc83610a09cdd7e56625629f11fbe5bb5MD521992/55090oai:repositorio.uniandes.edu.co:1992/550902024-03-13 15:17:19.485http://creativecommons.org/licenses/by-nc-nd/4.0/restrictedhttps://repositorio.uniandes.edu.coRepositorio institucional Sénecaadminrepositorio@uniandes.edu.co