De Novo Fungal Genome Assembly
BMKGENE muaj cov kev daws teeb meem ntau yam rau cov noob caj noob ces fungal, ua kom tau raws li ntau yam kev xav tau kev tshawb fawb thiab kev ua tiav ntawm cov noob caj noob ces. Kev siv Illumina sequencing luv luv xwb tso cai rau kev tsim cov qauv noob caj noob ces. Kev nyeem luv luv thiab kev nyeem ntev siv Nanopore lossis Pacbio raug sib xyaw ua ke rau cov noob caj noob ces fungal zoo dua nrog cov contigs ntev dua.
Cov yam ntxwv ntawm kev pabcuam
Muaj ob txoj kev xaiv uas koj xaiv tau nyob ntawm seb koj xav tau qib kev ua tiav ntawm cov genome li cas:
● Kev Xaiv Qauv Genome: Kev nyeem luv luv sequencing nrog Illumina NovaSeq PE150.
● Kev Xaiv Genome Zoo ntawm Cov Kab Mob Fungal:
Kev Tshawb Fawb Txog Genome: Illumina NovaSeq PE150.
Kev Sib Dhos Genome: PacBio Revio (Nyeem HiFi) lossis Nanopore PromethION 48.
Cov Kev Pabcuam Zoo
●Muaj Ntau Txoj Kev Npaj Ua SequencingRau cov hom phiaj tshawb fawb sib txawv thiab cov kev xav tau ntawm kev ua tiav ntawm genome
●Kev Ua Haujlwm Bioinformatics Tag Nrho:Qhov no suav nrog kev sib sau ua ke ntawm genome thiab kev kwv yees ntawm ntau yam genomic elements, kev piav qhia txog cov gene annotation, thiab contig anchoring.
●Kev Paub Ntau YamPeb muaj ntau tshaj 12,000 hom kab mob me me uas tau sib sau ua ke, peb muaj ntau tshaj kaum xyoo ntawm kev paub dhau los, pab pawg neeg tshuaj xyuas uas muaj kev txawj ntse heev, cov ntsiab lus dav dav, thiab kev txhawb nqa tom qab muag zoo heev.
●Kev Txhawb Nqa Tom Qab Muag Khoom:Peb txoj kev cog lus tseem ceeb tshaj qhov ua tiav qhov project nrog rau 3 lub hlis kev pabcuam tom qab muag. Thaum lub sijhawm no, peb muab kev saib xyuas project, kev pab daws teeb meem, thiab cov lus nug thiab lus teb los teb cov lus nug ntsig txog cov txiaj ntsig.
Cov Lus Qhia Txog Kev Pabcuam
| Kev Pabcuam | Txoj Kev Npaj Txog Sequencing | Kev Tswj Xyuas Zoo |
| Daim Ntawv Qhia Txog Genome | Illumina PE150 100x | Q30≥85% |
| Cov Genome Zoo | Kev soj ntsuam genome: Illumina PE150 50 x Sib dhos: PacBio HiFi 30x lossis Nanopore 100x | contig N50 ≥1Mb (Pacbio Unicellular) contig N50 ≥2Mb (ONT Unicellular) contig N50 ≥500kb (Lwm yam) |
Cov Kev Xav Tau Kev Pabcuam
| Kev Ntsuas (ng/µL) | Tag nrho cov nqi (µg) | Ntim (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 | - | - |
Cov pwm ib lub hlwb: ≥3.5x1010 cov hlwb
Macro Fungus: ≥10 g
Kev Ua Haujlwm Pabcuam
Kev xa khoom qauv
Kev tsim kho tsev qiv ntawv
Kev txheeb xyuas kab ke
Kev tshuaj xyuas cov ntaub ntawv
Cov kev pab cuam tom qab muag
Muaj xws li Kev Tshawb Fawb Hauv Qab No:
Kev Tshawb Fawb Txog Genome:
- Kev tswj xyuas cov ntaub ntawv zoo ntawm kev txheeb xyuas cov ntaub ntawv
- Kev kwv yees genome: qhov loj me, heterozygosity, cov ntsiab lus rov ua dua
Kev Sib Dhos Genome Zoo:
- Kev Tswj Xyuas Zoo ntawm Cov Ntaub Ntawv Sequencing
- De novoSib dhos
- Kev Tshawb Fawb Txog Cheebtsam Genome: Kev Kwv Yees Txog CDS thiab ntau yam genomic elements
- Cov lus piav qhia ua haujlwm nrog ntau lub hauv paus ntaub ntawv dav dav (GO, KEGG, thiab lwm yam) thiab cov ntaub ntawv siab heev (CARD, CAZy, thiab lwm yam)
Kev tshawb fawb txog genome: kev faib tawm k-mer
Kev sib sau ua ke ntawm genome: cov lus piav qhia txog cov noob caj noob ces (NR database)
Kev sib sau ua ke ntawm genome: kev piav qhia txog cov noob caj noob ces (GO)
Tshawb nrhiav kev nce qib uas tau pab txhawb los ntawm BMKGene cov kev pabcuam sib sau ua ke ntawm cov noob caj noob ces los ntawm kev sau cov ntawv tshaj tawm uas tau xaiv tseg.
Hao, J. et al. (2023) 'Kev sib xyaw ua ke ntawm cov nceb tshuaj Inonotus obliquus nyob rau hauv qab dej',BMC Genomics, 24(1), nplooj ntawv 1–12. doi: 10.1186/S12864-023-09656-Z/FIGURES/3.
Lu, L. et al. (2023) 'Kev txheeb xyuas cov noob caj noob ces qhia txog kev hloov pauv thiab cov txheej txheem ua rau muaj kab mob ntawm cov kab mob Rhizoctonia cerealis',Phau Ntawv Xov Xwm Txog Qoob Loo, 11(2), pp. 405–416. doi: 10.1016/J.CJ.2022.07.024.
Zhang, H. et al. (2023) 'Cov peev txheej genome rau plaub hom Clarireedia ua rau muaj qhov teeb meem ntawm ntau hom nyom',Kab Mob Nroj Tsuag, 107(3), nplooj ntawv 929–934. doi: 10.1094/PDIS-08-22-1921-A
Zhang, SS et al. (2023) 'Cov pov thawj txog caj ces thiab molecular ntawm Tetrapolar Mating System hauv Edible Mushroom Grifola frondosa',Phau ntawv Journal of Fungi, 9(10), nplooj 959. doi: 10.3390/JOF9100959/S1.
