prikaz prve stranice dokumenta Identification, redesign and characterization of anuran antimicrobial peptides
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doctoral thesis
Identification, redesign and characterization of anuran antimicrobial peptides
from targeted DNA sequencing and database analyses to peptide antibiotics
2019. urn:nbn:hr:166:288621
Rončević, Tomislav
University of Split
Faculty of Science
Department of Physics

Cite this document

Rončević, T. (2019). Identification, redesign and characterization of anuran antimicrobial peptides : from targeted DNA sequencing and database analyses to peptide antibiotics (Doctoral thesis). Split: University of Split, Faculty of Science. Retrieved from https://urn.nsk.hr/urn:nbn:hr:166:288621

Rončević, Tomislav. "Identification, redesign and characterization of anuran antimicrobial peptides : from targeted DNA sequencing and database analyses to peptide antibiotics." Doctoral thesis, University of Split, Faculty of Science, 2019. https://urn.nsk.hr/urn:nbn:hr:166:288621

Rončević, Tomislav. "Identification, redesign and characterization of anuran antimicrobial peptides : from targeted DNA sequencing and database analyses to peptide antibiotics." Doctoral thesis, University of Split, Faculty of Science, 2019. https://urn.nsk.hr/urn:nbn:hr:166:288621

Rončević, T. (2019). 'Identification, redesign and characterization of anuran antimicrobial peptides : from targeted DNA sequencing and database analyses to peptide antibiotics', Doctoral thesis, University of Split, Faculty of Science, accessed 13 September 2024, https://urn.nsk.hr/urn:nbn:hr:166:288621

Rončević T. Identification, redesign and characterization of anuran antimicrobial peptides : from targeted DNA sequencing and database analyses to peptide antibiotics [Doctoral thesis]. Split: University of Split, Faculty of Science; 2019 [cited 2024 September 13] Available at: https://urn.nsk.hr/urn:nbn:hr:166:288621

T. Rončević, "Identification, redesign and characterization of anuran antimicrobial peptides : from targeted DNA sequencing and database analyses to peptide antibiotics", Doctoral thesis, University of Split, Faculty of Science, Split, 2019. Available at: https://urn.nsk.hr/urn:nbn:hr:166:288621

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Metadata
TitleIdentification, redesign and characterization of anuran antimicrobial peptides : from targeted DNA sequencing and database analyses to peptide antibiotics
Title (croatian)Identifikacija, redizajn i karakterizacija antimikrobnih peptida iz žaba (Anura) : od ciljanog sekvenciranja DNK i analiza baza podataka prema peptidnim antibioticima
AuthorTomislav Rončević
MentorJasna Puizina (mentor)
MentorAlessandro Tossi https://orcid.org/0000-0001-9087-5764 (mentor)
Committee memberAna Maravić (predsjednik povjerenstva)
Committee memberKarl Lohner https://orcid.org/0000-0002-7867-5409 (član povjerenstva)
Committee memberMaria Luisa Mangoni https://orcid.org/0000-0002-5991-5868 (član povjerenstva)
GranterUniversity of Split
Faculty of Science
(Department of Physics)
Split
Defense date and country2019-04-25, Croatia
Scientific / art field,
discipline and subdiscipline		NATURAL SCIENCES
Biology
Universal decimal classification
(UDC)		577 - Biochemistry. Molecular biology. Biophysics
Abstract
Antimicrobial peptides (AMPs) are structurally diverse molecules naturally produced by most organisms, with direct antimicrobial activity against pathogens and often showing other immune-related properties. Anurans are a particularly rich source of these peptides, with ~2000 different sequences reported in Database of Anuran Defense Peptides (DADP). A novel approach for simultaneous multispecies peptide identification has been developed by exploiting the highly conserved signal peptide region to design family specific forward degenerate primers, using RNAseq data available in the Sequence Read Archive (SRA) database, and using them to selectively amplify AMP-coding transcripts from small amounts of frog skin tissue. Additionally, novel peptides have been redesigned with the help of molecular descriptors using the Mutator software that links biophysical properties of the peptides with their biological activity. This software has been trained on helical AMPs of anuran origin and may provide best results if natural peptides of anuran origin are used as input. In both cases, a number of the identified/designed peptides have been tested for antibacterial activity, toxicity and mode of action. Some of these proved to be potent antimicrobials with limited toxicity towards host cells.
Abstract (croatian)
Antimikrobni peptidi (AMP) su strukturalno različite molekule prirodno sintetizirane u većini organizmima, s direktnom antimikrobnom aktivnosti, dok često pokazuju i druga imunološki povezana svojstva. Vodozemci iz reda Anura su naročito bogat izvor takvih peptida s ~2000 različite sekvence pohranjene u 'Database of Anuran Defense Peptides' (DADP). Razvijen je novi pristup za istovremenu identifikaciju peptida iz više različitih vrsta oslanjajući se na izrazito očuvane signalne sekvence za dizajn specifičnih početnica i podatke RNAseq dostupne u 'Sequence Read Archive' (SRA), te ih koristeći kako bi se selektivno umnožili transkripti koji kodiraju AMP iz malih količina tkiva kože žaba. Također, novi peptidi su redizajnirani uz pomoć molekularnih deskriptora koristeći računalni program Mutator koji povezuje biofizikalna svojstva peptida s njihovom biološkom aktivnošću. Taj alat razvijen je koristeći set helikalnih AMP-a žabljeg podrijetla, te bi trebao dati najbolje rezultate ako se unose upravo takvi prirodni peptidi. U oba slučaja, određeni broj identificiranih/dizajniranih peptida je testiran naspram antibakterijske aktivnosti, toksičnosti i mehanizma djelovanja. Neki od tih peptida su se pokazali kao dobri antimikrobni kandidati s neznatnom toksičnošću naspram stanica domaćina.
Keywords
Keywords (croatian)
Languageenglish
URN:NBNurn:nbn:hr:166:288621
Study programmeTitle: Postgraduate University Study of Biophysics
Study programme type: university
Study level: postgraduate
Academic / professional title: doktor/doktorica znanosti, područje prirodnih znanosti, polje biologija (doktor/doktorica znanosti, područje prirodnih znanosti, polje biologija)
Type of resourceText
Extent86 str. ; 30 cm
File originBorn digital
Access conditionsOpen access
Embargo expiration date: 2021-05-08
Terms of useLicence In copyright icon
Created on2019-06-03 11:30:15