I-Novo Fungal Genome Assembly
I-BMKGENE inikeza izixazululo ezihlukahlukene zama-genome esikhunta, ihlangabezana nezidingo zocwaningo ezahlukahlukene kanye nokuphelela kwe-genome okufiswayo. Ukusebenzisa i-short-read Illumina sequencing kuphela kuvumela ukukhiqizwa kwe-draft genome. I-short-reading kanye ne-long-read sequencing kusetshenziswa i-Nanopore noma i-Pacbio kuhlanganiswe ukuze kube ne-fungus genome ecwengekile kakhulu enezinhlayiya ezinde.
Izici Zesevisi
Kunezinketho ezimbili ongakhetha kuzo kuye ngezinga elifiswayo lokuphelela kwe-genome:
● Inketho Yokwakheka Kwe-Genome Esalungiswa: Ukulandelana Kokufunda Okufushane nge-Illumina NovaSeq PE150.
● Inketho ye-Fungal Fine Genome:
Ucwaningo lwe-Genome: Illumina NovaSeq PE150.
Ukuhlanganiswa kwe-Genome: I-PacBio Revio (i-HiFi reads) noma i-Nanopore PromethION 48.
Izinzuzo Zesevisi
●Amasu Okulandelana Okuningi Ayatholakala: Ngezinhloso ezahlukene zocwaningo kanye nezidingo zokuphelela kwe-genome
●Ukugeleza Komsebenzi Okuphelele Kwe-Bioinformatics:Lokhu kufaka phakathi ukuhlanganiswa kwe-genome kanye nokubikezela izakhi eziningi ze-genomic, isichasiselo sezakhi zofuzo ezisebenzayo, kanye nokubambelela kwe-contig.
●Ubuchwepheshe Obubanzi: Njengoba kuhlanganiswe ama-genome e-microbial angaphezu kuka-12,000, siletha 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.
Imininingwane Yesevisi
| Isevisi | Isu Lokulandelana | Ikhwalithi yokulawula |
| I-Genome Esalungiswa | I-Illumina PE150 100x | Q30≥85% |
| I-Genome Enhle | Ucwaningo lwe-Genome: Illumina PE150 50 x Ukuhlanganiswa: I-PacBio HiFi 30x noma i-Nanopore 100x | i-N50 ≥1Mb（i-Pacbio Unicellular） i-N50 ≥2Mb（ONT Unicellular） i-contig N50 ≥500kb （Okunye） |
Izidingo Zesevisi
| Ukugxila (ng/µL) | Inani eliphelele (µg) | Ivolumu (µL) | OD260/280 | OD260/230 | |
| I-PacBio | ≥20 | ≥2 | ≥20 | 1.7-2.2 | ≥1.6 |
| I-Nanopore | ≥40 | ≥2 | ≥20 | 1.7-2.2 | 1.0-3.0 |
| I-Illumina | ≥1 | ≥0.06 | ≥20 | - | - |
Isikhunta Esiyi-Unicellular: ≥3.5x1010 amaseli
I-Macro Fungus: ≥10 g
Ukugeleza Komsebenzi Wesevisi
Ukulethwa kwesampula
Ukwakhiwa komtapo wolwazi
Ukulandelana
Ukuhlaziywa kwedatha
Izinsizakalo zangemuva kokuthengisa
Kufaka phakathi Ukuhlaziywa Okulandelayo:
Ucwaningo lwe-Genome:
- Ukulawula ikhwalithi yedatha ngokulandelana
- Ukuqagelwa kwe-genome: usayizi, i-heterozygosity, izinto eziphindaphindayo
Ukuhlanganiswa Kwe-Genome Enhle:
- Ukulandelelanisa Ukulawulwa Kwekhwalithi Yedatha
- De novoUkuhlanganiswa
- 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.)
Ucwaningo lwe-genome: ukusatshalaliswa kwe-k-mer
Ukuhlanganiswa kwe-genome: isichasiselo se-gene homologous (isizindalwazi se-NR)
Ukuhlanganiswa kwe-genome: isichasiselo se-gene esisebenzayo (GO)
Hlola intuthuko eyenziwe yizinsizakalo zokuhlanganisa i-fungus genome ze-BMKGene ngeqoqo lezincwadi ezikhethiwe.
UHao, J. et al. (2023) 'Ukuhlanganiswa kwephrofayili ye-omic yekhowe lezokwelapha i-Inonotus obliquus ngaphansi kwezimo ezingaphansi kwamanzi',I-BMC Genomics, 24(1), amakhasi 1–12. doi: 10.1186/S12864-023-09656-Z/FIGURES/3.
ULu, L. et al. (2023) 'Ukulandelana kwezakhi zofuzo kwembula ukuvela kanye nezindlela ezibangela izifo zegciwane le-wheat sharp eyespot i-Rhizoctonia cerealis',Ijenali Yezitshalo, 11(2), amakhasi 405-416. doi: 10.1016/J.CJ.2022.07.024.
UZhang, H. et al. (2023) 'Izinsiza ze-Genome zezinhlobo ezine ze-Clarireedia ezibangela i-Dollar Spot kuma-Turfgrass ahlukahlukene',Izifo Zezitshalo, 107(3), amakhasi 929–934. doi: 10.1094/PDIS-08-22-1921-A
UZhang, SS et al. (2023) 'Ubufakazi Bofuzo kanye Nama-Molecular Besistimu Yokuzalana Ye-Tetrapolar ku-Edible Mushroom Grifola frondosa',Ijenali Yesikhunta, 9(10), ikhasi 959. doi: 10.3390/JOF9100959/S1.
