Ngeendlela ezintathu ezinokuthi ukhethe kuzo ngokuxhomekeke kwinqanaba elifunekayo lokugqibelela kwegenome:
● I-Draft Genome Option: Ulandelelwano lokufunda elifutshane kunye ne-Illumina NovaSeq PE150.
● UKhetho lweFungal Fine Genome:
Uvavanyo lweGenome: Illumina NovaSeq PE150.
INdibano yeGenome: I-PacBio Revio (i-HiFi ifundeka) okanye i-Nanopore PromethION 48.
● IFungal Genome yenqanaba leChromosome:
Uvavanyo lweGenome: Illumina NovaSeq PE150.
INdibano yeGenome: I-PacBio Revio (i-HiFi ifundeka) okanye i-Nanopore PromethION 48.
Ukudibanisa i-ankile ngendibano ye-Hi-C.
●IiNdlela ezininzi zokuSelenza ziyafumaneka: Ngeenjongo ezahlukeneyo zophando kunye neemfuno zokugqibelela kwegenome
●Gqibezela i-Bioinformatics Workflow:Oku kubandakanya ukudibanisa i-genome kunye nokuqikelelwa kwezinto ezininzi ze-genomic, inkcazo yemfuza esebenzayo, kunye ne-contig anchoring.
●UbuGcisa obuBanzi: Ngaphezulu kwe-12,000 yee-microbial genomes ezidityanisiweyo, sizisa ngaphezulu kweminyaka elishumi yamava, iqela lohlalutyo elinezakhono eziphezulu, umxholo obanzi, kunye nenkxaso egqwesileyo emva kokuthengisa.
●Inkxaso yasemva kwentengiso:Ukuzinikela kwethu kudlulela ngaphaya kokugqitywa kweprojekthi kunye neenyanga ezi-3 emva kokuthengiswa kwenkonzo. Ngeli xesha, sinikezela ngokulandelelana kweprojekthi, uncedo lokusombulula ingxaki, kunye neeseshoni ze-Q&A ukujongana nayo nayiphi na imibuzo enxulumene neziphumo.
Inkonzo | Isicwangciso solandelelwano | Ulawulo lwemeko |
Uyilo lweGenome | Illumina PE150 100x | Q30≥85% |
IGenome entle | Uphando lweGenome: Illumina PE150 50 x INdibano: PacBio HiFi 30x okanye Nanopore 100x | contig N50 ≥1Mb (Pacbio Unicellular) contig N50 ≥2Mb(ONT Unicellular) contig N50 ≥500kb (Abanye) |
I-genome yenqanaba leChromosome | Uphando lweGenome: Illumina PE150 50 x INdibano: PacBio HiFi 30x okanye Nanopore 100x Hi-C Assembly 100x | Contig anchoring ratio>90%
|
Ugxininiso (ng/µL) | Imali iyonke (µg) | Umthamo (µL) | OD260/280 | OD260/230 | |
PacBio | ≥20 | ≥2 | ≥20 | 1.7-2.2 | ≥1.6 |
Nanopore | ≥40 | ≥2 | ≥20 | 1.7-2.2 | 1.0-3.0 |
Illumina | ≥1 | ≥0.06 | ≥20 | - | - |
I-Unicellular Fungus: ≥3.5x1010 iiseli
I-Macro Fungus: ≥10 g
Ibandakanya uHlahlelo Olulandelayo:
UPhando lweGenome:
INdibano yeGenome entle:
INdibano ye-Hi-C:
Uphando lweGenome: ukuhanjiswa kwe-k-mer
Indibano yeGenome: gene homologous annotation (NR database)
Indibano yeGenome: Inkcazo yemfuza esebenzayo (GO)
Phonononga inkqubela phambili eququzelelwa yi-BMKGene yeenkonzo zokudityaniswa kofuzo lomngundo ngengqokelela egciniweyo yopapasho.
Hao, uJ. et al. (2023) 'Iprofayili ye-omic edibeneyo ye-mushroom yamayeza i-Inonotus obliquus phantsi kweemeko eziphantsi kwamanzi',I-BMC Genomics, 24(1), iphepha 1–12. doi: 10.1186/S12864-023-09656-Z/IMIFANEKISO/3.
Lu, L. et al. (2023) 'Ulandelelwano lweGenome lutyhila ukuvela kunye neendlela ze-pathogenic zengqolowa ebukhali yamehlo e-pathogen Rhizoctonia cerealis',Ijenali yezityalo, 11(2), iphepha 405–416. doi: 10.1016/J.CJ.2022.07.024.
UZhang, H. et al. (2023) 'Izixhobo zeGenome kwiintlobo ezine zeClarireedia ezibangela indawo yeDola kwiiTurfgrasses ezahlukeneyo',Izifo zezityalo, 107(3), iphepha 929-934. doi: 10.1094/PDIS-08-22-1921-A
UZhang, SS et al. (2023) 'Ubungqina beGenetic kunye neMolekyuli yeTetrapolar Mating System kwi-Edible Mushroom Grifola frondosa',Ijenali yeFungi, 9(10), iphe. 959. doi: 10.3390/JOF9100959/S1.