I-Novo Bacterial Genome Assembly
Sinikeza isevisi ephelele yokuhlanganisa i-genome yamagciwane, okuqinisekisa izikhala ezingu-0. Lokhu kungenzeka ngokuhlanganisa ubuchwepheshe bokulandelana kokufunda isikhathi eside, njenge-Nanopore ne-PacBio yokuhlanganisa nokulandelana kokufunda okufushane ne-Illumina yokuqinisekisa ukuhlanganiswa nokulungiswa kwamaphutha okufundwa kwe-ONT. Insizakalo yethu inikeza ukuhamba komsebenzi okuphelele kwe-bioinformatic kusukela ekuhlanganisweni, isichasiselo esisebenzayo, kanye nokuhlaziywa kwe-bioinformatic okuthuthukisiwe, kugcwalisa imigomo ethile yocwaningo. Le nsizakalo ivumela ukuthuthukiswa kwe-genome eqondile yezifundo ezahlukene ze-genetic kanye ne-genomic. Ngaphezu kwalokho, yakha isisekelo sezinhlelo zokusebenza ezifana nokwenza ngcono ukucindezeleka, ubunjiniyela be-genetic, kanye nokuthuthukiswa kobuchwepheshe be-microbial, ukuqinisekisa idatha ye-genomic ethembekile nengenazikhala ebalulekile ekuthuthukiseni ukuqonda kwesayensi kanye nokusungula izinto ezintsha ze-biotechnology.
Izici Zesevisi
● Kunezinketho ezimbili ongakhetha kuzo kuye ngezinga elifiswayo lokuphelela kwe-genome.
● Inketho Yokwakheka Kwe-Genome Esalungiswa: Ukulandelana Kokufunda Okufushane nge-Illumina NovaSeq PE150.
● I-genome ephelele yegebe elingu-0.
● Ukulandelana okufundwe isikhathi eside ku-Nanopore PromethION 48 noma ku-PacBio Revio ukuze kuhlanganiswe i-genome.
● Ukulandelana okufushane kwe-Illumina NovaSeq kokuqinisekiswa kwe-genome nokulungiswa kwamaphutha (i-Nanopore) noma ukukhiqiza i-genome ewuhlaka.
Izinzuzo Zesevisi
●I-Zero-Gap Genome Iqinisekisiwe: Lokhu kungenxa yokuhlanganiswa kokulandelana kwe-Illumina nokulandelana kokufunda okude (i-Nanopore noma i-PacBio).
●Ukugeleza Komsebenzi Okuphelele Kwe-Bioinformatics:Lokhu kufaka phakathi ukuhlanganiswa kwezakhi zofuzo kanye nokubikezela izakhi eziningi zezakhi zofuzo, isichasiselo sezakhi zofuzo ezisebenzayo, kanye nokubonwa kwezakhi zofuzo njenge-Circos plot.
●Ubuchwepheshe Obubanzi: Njengoba kuhlanganiswe ama-genome amagciwane angaphezu kuka-20,000, i-BMKGENE iletha ulwazi olungaphezu kweminyaka eyishumi, ithimba lokuhlaziya elinekhono eliphezulu, okuqukethwe okuphelele, kanye nokusekelwa okuhle kakhulu ngemuva kokuthengisa.
●Usekelo Lwangemva Kokuthengisa:Ukuzibophezela kwethu kudlulela ngale kokuqedwa kwephrojekthi ngesikhathi senkonzo yezinyanga ezintathu ngemuva kokuthengisa. Phakathi nalesi sikhathi, sinikeza ukulandelwa kwephrojekthi, usizo lokuxazulula izinkinga, kanye nezikhathi zemibuzo nezimpendulo ukuze kuxazululwe noma yimiphi imibuzo ehlobene nemiphumela.
●Amasu Okulandelana Amaningi Atholakalayo:Ngezinhloso ezahlukene zocwaningo kanye nezidingo zokuphelela kwe-genome.
Imininingwane Yesevisi
| Isevisi | Isu Lokulandelana |
| I-Genome Esalungiswa | I-Illumina PE150 100x |
| 0 I-Genome Yesikhala | I-Nanopore 100x + I-Illumina PE150 100x Or I-Pacbio HiFi 30x + Illumina PE150 100x (ongakukhetha) |
Izidingo 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 |
| I-Illumina | ≥1 | ≥0.06 | ≥20 | - | - |
· Amabhaktheriya: ≥3.5x1010 amaseli
Ukugeleza Komsebenzi Wesevisi
Ukulethwa kwesampula
Ukwakhiwa komtapo wolwazi
Ukulandelana
Ukuhlaziywa kwedatha
Izinsizakalo zangemuva kokuthengisa
Kufaka phakathi Ukuhlaziywa Okulandelayo:
● Ukulawula Ikhwalithi Yedatha Ngokulandelana
● Ukuhlanganiswa Kwezakhi Zofuzo
● Ukuhlaziywa Kwezingxenye Ze-Genome: Ukubikezela i-CDS kanye nezakhi eziningi ze-genomic
● Isichasiselo esisebenzayo esinama-database amaningi ajwayelekile (GO, KEGG, njll.) kanye nama-database athuthukile (CARD, CAZy, njll.)
● Ukuboniswa Kwezakhi Zofuzo
Sihlinzeka nge-genome ngefomethi esheshayo efinyeleleka kalula kanye nefayela lesichasiselo se-genome (gff).
Isichasiselo se-Gene – GO
Isichasiselo sezakhi zofuzo – ama-carbohydrate aqinile
Ukuboniswa kwe-genome - Isakhiwo se-Circos
Hlola intuthuko eyenziwe yizinsizakalo zokuhlanganisa i-genome yamabhaktheriya ze-BMKGene ngeqoqo lezincwadi ezikhethiwe.
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