Ibimera / Inyamaswa De novo Urukurikirane rwa Genome
Inyungu za serivisi
Gutezimbere urubuga rukurikirana hamwe na bioinformatics muride novointeko ya genome
(Amarasinghe SL n'abandi.,Ibinyabuzima bya Genome, 2020)
ØKubaka genome nshya no kunoza genome ihari kubwoko bushimishije.
ØUkuri kwukuri, gukomeza no kuzura mu nteko
ØKubaka ibikoresho byibanze byubushakashatsi muburyo bukurikirana polymorphism, QTLs, guhindura gene, korora, nibindi.
ØIbikoresho byuzuye byurwego rwibisekuru bya gatatu bikurikirana: igisubizo cya genome imwe
ØGukurikirana byoroshye no guteranya ingamba zuzuza genome zitandukanye hamwe nibintu bitandukanye
ØItsinda ryabahanga cyane bioinformatician hamwe nuburambe bukomeye mumateraniro ya genome igoye, harimo polyploide, genome nini, nibindi.
ØImanza zirenga 100 zatsinze hamwe hamwe n'ingaruka zirenga 900
ØHindura-hafi-byihuse nkamezi 3 ya chromosome-urwego rwa genome.
ØInkunga ikomeye ya tekiniki hamwe nuruhererekane rwa patenti hamwe nuburenganzira bwa software muburyo bwikigereranyo na bioinformatics.
Ibisobanuro bya serivisi
| Uburyo bukurikirana | Isomero | Ubujyakuzimu busabwa | Bigereranijwe guhindukira | Inteko |
| PacBio Muraho | 15 kugeza 30 kb | Genome yoroshye ≥ 30 X. Genome igoye ≥ 60 X. | Amezi 3 -6 yo guterana no gutangaza genome (Ukurikije amoko) | Contig N50 ≥ 2 Mb (Ukurikije amoko) |
| PacBio CLR | 20 kb, 30 kb | Genome yoroshye ≥ 100 X. Genome igoye ≥ 150 X. | ||
| Nanopore | 20-50 kb |
Isesengura rya bioinformatics
ügenome
üGuhamagara
üKugenzura ubuziranenge no gukosora amakosa
üInteko ya novo
üGutunganya inteko
üGuhanura ibisekuru
üIbisobanuro bya genome
üIsesengura ryo hasi
Icyitegererezo gisabwa no gutanga
Icyitegererezo gisabwa:
| Ubwoko | Tissue | Kuri PacBio | Kuri Nanopore |
| Inyamaswa | Imyanya ndangagitsina (umwijima, impyiko, nibindi) | ≥ 1.0 g | ≥ 3.5 g |
| Imitsi | ≥ 1.5 g | ≥ 5.0 g | |
| Amaraso y’inyamabere | ≥ 1.5 mL | ≥ 5.0 mL | |
| Amaraso y'amafi cyangwa inyoni | ≥ 0.2 mL | ≥ 0.5 mL | |
| Ibimera | Amababi mashya | ≥ 1.5 g | ≥ 5.0 g |
| Amababi cyangwa uruti | ≥ 3.5 g | ≥ 10.0 g | |
| Imizi cyangwa imbuto | ≥ 7.0 g | ≥ 20.0 g | |
| Ingirabuzimafatizo | Umuco w'akagari | ≥ 3 × 107 | ≥ 1 × 108 |
Basabwe Gutanga Icyitegererezo
Ibikoresho: ml 2 ya centrifuge (Tin foil ntabwo isabwa)
Kubenshi mubitegererezo, turasaba kutabika muri Ethanol.
Icyitegererezo cyerekana: Icyitegererezo kigomba kuba cyanditseho neza kandi gihuye nicyitegererezo cyatanzwe.
Kohereza: Kuma-ice: Ingero zigomba kubanza gupakirwa mumifuka hanyuma zigashyingurwa mu rubura.
Akazi ka serivisi
Igishushanyo mbonera
Icyitegererezo
Gukuramo ADN
Kubaka isomero
Urukurikirane
Isesengura ryamakuru
Serivisi nyuma yo kugurisha
* Ibisubizo bya Demo byerekanwe hano byose biva muri genomes yatangajwe na Biomarker Technologies
1.Circos kuri chromosome-urwego rwa genome inteko yaG. rotundifoliumna Nanopore ikurikirana
Wang M n'abandi.,Ibinyabuzima bya molecular na Evolisiyo, 2021
2.Imibare ya Weining ryegeranya genome hamwe na annotation
Li G n'abandi.,Kamere Kamere, 2021
3.Ihanurwa rusangeSechium edulegenome, ikomoka muburyo butatu bwo guhanura:De novoguhanura, Ubuhanuzi bushingiye kuri Homologiya hamwe na RNA-Seq amakuru ashingiye ku guhanura
Fu A n'abandi.,Ubushakashatsi bwimbuto, 2021
4.Kumenyekanisha ibintu birebire bisubiramo muri genome eshatu
Wang M n'abandi.,Ibinyabuzima bya molecular na Evolisiyo, 2021
5.Hi-C ikarita yubushyuhe yaC. acuminatagenome yerekana genome-yagutse byose-by-imikoranire.Ubwinshi bwimikoranire ya Hi-C buringaniye nintera yumurongo hagati ya contigs.Umurongo ugororotse usukuye kuri iyi karita yubushyuhe yerekana neza neza inanga ya chromosomes.(Contig anchoring ratio: 96.03%)
kang M n'abandi.,Itumanaho rya Kamere,2021
Urubanza rwa BMK
Iteraniro ryiza rya genome ryerekana imiterere ya genome hamwe na gen
Byatangajwe: Kamere Kamere, 2021
Ingamba zikurikirana:
Inteko rusange: PacBio CLR uburyo hamwe nibitabo 20 kb (497 Gb, hafi 63 ×)
Gukosora bikurikiranye: NGS hamwe na 270 bp isomero rya ADN (430 Gb, hafi 54 ×) kurubuga rwa Illumina.
Igizwe na ankoring: Isomero rya Hi-C (560 Gb, hafi 71 ×) kurubuga rwa Illumina
Ikarita nziza: (779.55 Gb, hafi 99 ×) kuri Bionano Irys
Ibisubizo by'ingenzi
1.Iteraniro rya Weining rye genome ryasohowe hamwe na genome yose hamwe ingana na 7,74 Gb (98,74% yubunini bwa genome ukoresheje cytometrie).Scaffold N50 y'iyi nteko yageze kuri 1.04 Gb.93,67% bya contigs byatsinzwe neza kuri 7 pseudo-chromosomes.Iyi nteko yasuzumwe n'ikarita ihuza, LAI na BUSCO, bivamo amanota menshi mubisuzuma byose.
2.Ubundi bushakashatsi kuri genomics igereranya, ikarita ihuza genetike, ubushakashatsi bwa transcriptomics bwakozwe kuri iyi genome.Urukurikirane rw'ibintu bifitanye isano na genomique byagaragaye harimo genoside yagutse ya genome n'ingaruka zabyo kuri genoside biosynthesis;imitunganyirize yumubiri ya prolamine igoye, imvugo ya gene iranga imitwe hakiri kare imitwe hamwe no gushira mu rugo bifitanye isano na chromosomal na loci muri rye.
 Igishushanyo cya Circos kumiterere ya genomic ya Weining rye genome |  Ubwihindurize na chromosome synteny isesengura rya genome ya rye |
Li, G., Wang, L., Yang, J.n'abandi.Iteraniro ryiza rya genome ryerekana imiterere ya genome hamwe na gen.Nat Genet 53,574–584 (2021).
https://doi.org/10.1038/s41588-021-00808-z
