I-Novo Bacterial Genome Assembly
Sinikeza insizakalo ephelele yokuhlanganisa i-genome yebhaktheriya, eqinisekisa izikhala ezi-0. Lokhu kungenzeka ngokuhlanganisa ubuchwepheshe bokulandelana obufundwe isikhathi eside, obufana ne-Nanopore ne-PacBio ukuze bahlanganise futhi bafunde okufushane ngokulandelana nge-Illumina ukuze kuqinisekiswe umhlangano kanye nokulungiswa kwamaphutha okufundwa kwe-ONT. Isevisi yethu ihlinzeka ngokugeleza komsebenzi okuphelele kwe-bioinformatic kusukela ekuhlanganiseni, isichasiselo esisebenzayo, nokuhlaziya okuthuthukisiwe kwe-bioinformatic, ukufeza imigomo ethile yocwaningo. Le sevisi inika amandla ukuthuthukiswa kwenkomba yofuzo enembile yezifundo ezihlukahlukene zofuzo kanye ne-genomic. Ukwengeza, kwakha isisekelo sezinhlelo zokusebenza ezifana nokwenza kahle kobunzima, ubunjiniyela bezakhi zofuzo, nokuthuthukiswa kobuchwepheshe be-microbial, ukuqinisekisa idatha ethembekile nengenagebe ebalulekile ekuthuthukiseni ulwazi lwesayensi kanye nokuqanjwa kwe-biotechnological.
Izici Zesevisi
● Ngezinketho ezimbili ongakhetha kuzo kuye ngezinga oyifunayo lokuphelela kofuzo.
● Inketho ye-Genome Esalungiswa: Ukulandelana kokufunda okufushane nge-Illumina NovaSeq PE150.
● Gcwalisa igenome yegenomu engu-0.
● Ukulandelana okufunde isikhathi eside ku-Nanopore PromethION 48 noma i-PacBio Revio yokuhlanganisa i-genome.
● Ukulandelana kokufunda okufushane ku-Illumina NovaSeq ukuze kuqinisekiswe igenome nokulungiswa kwamaphutha (Nanopore) noma ukukhiqiza igenome esalungiswa.
Izinzuzo Zesevisi
●I-Zero-Gap Genome Iqinisekisiwe: Lokhu kungenxa yokuhlanganiswa kokulandelana kwe-Illumina nokulandelana kokufunda okude (Nanopore noma i-PacBio).
●Qedela ukugeleza kokusebenza kwe-Bioinformatics:Lokhu kuhlanganisa ukuhlanganiswa kofuzo nokubikezela kwezinto eziningi ze-genomic, isichasiselo sofuzo esisebenzayo, nokubonwa kwegenome okufana nesakhiwo se-Circos.
●Ubungcweti Olubanzi: Njengoba kuhlanganiswe ama-microbial genomes angaphezu kuka-20,000, i-BMKGENE iletha isipiliyoni esingaphezu kweminyaka eyishumi, ithimba lokuhlaziya elinekhono eliphezulu, okuqukethwe okuphelele, nokusekelwa okuhle kakhulu kwangemuva kokuthengisa.
●Ukusekelwa Kwangemva Kokuthengisa:Ukuzinikela kwethu kudlulela ngalé kokuphothulwa kwephrojekthi ngenkathi yesevisi yezinyanga ezi-3 ngemva kokuthengisa. Ngalesi sikhathi, sinikezela ngokulandelelwa kwephrojekthi, usizo lokuxazulula inkinga, namaseshini e-Q&A ukuze siphendule noma yimiphi imibuzo ehlobene nemiphumela.
●Amasu Okulandelanisa Amaningi Ayatholakala:Ngezinhloso ezahlukene zocwaningo kanye nezidingo zokuphelela kofuzo.
Imininingwane Yesevisi
| Isevisi | Isu Lokulandelanisa |
| I-Genome esalungiswa | I-Illumina PE150 100x |
| 0 I-Gap Genome | I-Nanopore 100x + Illumina PE150 100x Or I-Pacbio HiFi 30x + Illumina PE150 100x (uma uthanda) |
Izimfuneko zesampula:
| Ukugxila (ng/µL) | Inani eliphelele (µg) | Ivolumu (µL) | OD260/280 | OD260/230 | |
| I-PacBio | ≥20 | ≥1.2 | ≥20 | 1.7-2.2 | ≥1.0 |
| I-Nanopore | ≥40 | ≥2 | ≥20 | 1.7-2.2 | 1.0-3.0 |
| Illumina | ≥1 | ≥0.06 | ≥20 | - | - |
· Amagciwane: ≥3.5x1010 amaseli
Ukugeleza Komsebenzi Wesevisi
Ukulethwa kwesampula
Ukwakhiwa komtapo wolwazi
Ukulandelanisa
Ukuhlaziywa kwedatha
Amasevisi angemuva kokuthengisa
Kubandakanya Ukuhlaziya Okulandelayo:
● Ukulandelanisa Ukulawulwa Kwekhwalithi Yedatha
● I-Genome Assembly
● Ukuhlaziywa Kwengxenye Ye-Genome: Ukubikezelwa kwe-CDS nezici eziningi ze-genomic
● Isichasiselo esisebenzayo esinesizindalwazi esiningi esijwayelekile (GO, KEGG, njll) nezizindalwazi ezithuthukisiwe (i-CARD, VFDB, njll)
● Ukubona Ngeso lofuzo
Sihlinzeka ngofuzo ngefomethi ye-fasta efinyeleleka kalula kanye nefayela lesichasiselo se-genome (gff).
Isichasiselo sofuzo – GO
Isichasiselo sofuzo - ama-carbohydrate e-CAZY
Ukubukwa kwe-genome - Isakhiwo se-Circos
Hlola intuthuko egqugquzelwa izinsiza zokuhlanganisa igenomu yebhaktheriya ye-BMKGene ngeqoqo elikhethiwe lokushicilelwe.
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