Towards the well-tempered chloroplast DNA sequences

Turudić, Ante (avtor), Liber, Zlatko (avtor), Grdiša, Martina (avtor), Jakše, Jernej (avtor), Varga, Filip (avtor), Šatović, Zlatko (avtor)

With the development of next-generation sequencing technology and bioinformatics tools, the process of assembling DNA sequences has become cheaper and easier, especially in the case of much shorter organelle genomes. The number of available DNA sequences of complete chloroplast genomes in public genetic databases is constantly increasing and the data are widely used in plant phylogenetic and biotechnological research. In this work, we investigated possible inconsistencies in the stored form of publicly available chloroplast genome sequence data. The impact of these inconsistencies on the results of the phylogenetic analysis was investigated and the bioinformatic solution to identify and correct inconsistencies was implemented. The whole procedure was demonstrated using five plant families (Apiaceae, Asteraceae, Campanulaceae, Lamiaceae and Rosaceae) as examples.

• Jezik: Angleški jezik
• Ključne besede: chloroplast genome, genome assembly, standardization, cyclic shift, inversion
• Vrsta gradiva: Članek v reviji
• Tipologija: 1.01 - Izvirni znanstveni članek
• Organizacija: BF - Biotehniška fakulteta
• Status publikacije: Objavljeno
• Različica publikacije: Objavljena publikacija
• Leto izida: 2021
• Št. strani: 14 str.
• Številčenje: Vol. 10, iss. 7, art. 1360
• PID: 20.500.12556/RUL-135742
• UDK: 602
• ISSN pri članku: 2223-7747
• DOI: 10.3390/plants10071360
• COBISS.SI-ID: 69203459
• Datum objave v RUL: 30.03.2022

Gradivo je del revije

• Naslov: Plants
• Skrajšan naslov: Plants
• Založnik: MDPI
• ISSN: 2223-7747
• COBISS.SI-ID: 523345433

Licence

• Licenca: CC BY 4.0, Creative Commons Priznanje avtorstva 4.0 Mednarodna
• Povezava: http://creativecommons.org/licenses/by/4.0/deed.sl
• Opis: To je standardna licenca Creative Commons, ki daje uporabnikom največ možnosti za nadaljnjo uporabo dela, pri čemer morajo navesti avtorja.
• Začetek licenciranja: 02.07.2021

Sekundarni jezik

• Jezik: Slovenski jezik
• Ključne besede: bioinformatika, kloroplasti, genom, sekvenciranje genoma, filogenetske analize, filogenetske metode

Projekti

• Financer: Drugi - Drug financer ali več financerjev
• Številka projekta: KK.01.1.1.01.0005
• Naslov: Biodiversity and Molecular Plant Breeding