Tsarin Shuka/ Dabba De Novo Genome Sequencing
Amfanin Sabis
Haɓaka tsarin dandamali da bioinformatics a cikinda novogenome taro
(Amarasinghe SL et al.,Halittar Halittar Halittu, 2020)
● Ƙirƙirar sabbin kwayoyin halitta da inganta abubuwan da ke akwai don nau'in sha'awa.
● Mafi girman daidaito, ci gaba da cikawa a cikin taro
● Ƙirƙirar tushen albarkatu don bincike a cikin jerin polymorphism, QTLs, gyaran kwayoyin halitta, kiwo, da dai sauransu.
● An sanye shi da cikakkun nau'ikan dandamali na jerin tsararru na ƙarni na uku: Maganin taro na genome na tsayawa ɗaya
● Sassauƙan jeri da haɗa dabarun cika nau'ikan kwayoyin halitta daban-daban tare da fasali daban-daban
● Ƙwararrun ƙwararrun ƙungiyar bioinformatician tare da ƙwarewa mai girma a cikin hadaddun genome majalisai, ciki har da polyploids, giant genomes, da dai sauransu.
Sama da shari'o'i 100 masu nasara tare da tarin tasirin tasirin da aka buga sama da 900
● Juyawa-lokaci da sauri kamar watanni 3 don haɗuwa da matakin-chromosome.
● Taimakon fasaha mai ƙarfi tare da jerin haƙƙin mallaka da haƙƙin mallaka na software a duka gefen gwaji da bioinformatics.
Ƙayyadaddun Sabis
|
Abun ciki
|
Dandalin
|
Tsawon Karatu
|
Rufewa
|
| Binciken Genome
| Illumina NovaSeq
| PE150
| 50X ku
|
| Tsarin Halitta
| PacBio Revio
| 15kb HiFi Karatu
| 30X ku
|
| Hi-C
| Illumina NovaSeq
| PE150
| ≥100X
|
Gudun aiki
Samfuran Bukatun da Bayarwa
Samfuran Bukatun:
| Nau'o'i | Nama | Don PacBio | Domin Nanopore |
| Dabbobi | Gabobin jiki (hanta, saifa, da sauransu) | ≥ 1.0 g | 3.5 g |
| tsoka | 1.5 g | ≥ 5.0 g | |
| Jinin dabbobi masu shayarwa | ≥ 1.5 ml | ≥ 5.0 ml | |
| Jinin kifi ko tsuntsaye | 0.2 ml | 0.5 ml na ruwa | |
| Tsire-tsire | Ganyen ganye | 1.5 g | ≥ 5.0 g |
| Petal ko kara | 3.5 g | ≥ 10.0 g | |
| Tushen ko tsaba | ≥ 7.0 g | ≥ 20.0 g | |
| Kwayoyin halitta | Al'adar salula | 3×107 | ≥ 1 × 108 |
Isar da Samfurin Nasiha
Kwantena: 2 ml bututu centrifuge (Ba a ba da shawarar foil tin ba)
Don yawancin samfurori, muna ba da shawarar kada a adana a cikin ethanol.
Alamar samfurin: Samfuran suna buƙatar a yi musu lakabi a sarari kuma iri ɗaya ga siffan bayanin samfurin da aka ƙaddamar.
Jirgin ruwa: Busasshen ƙanƙara: Ana buƙatar a haɗa samfuran a cikin jakunkuna da farko kuma a binne su a bushe-kankara.
Gudun Aikin Sabis
Gwajin ƙira
Samfurin bayarwa
Cire DNA
Gina ɗakin karatu
Jeri
Binciken bayanai
Bayan-sayar da sabis
*Sakamakon demo da aka nuna anan duk daga kwayoyin halittar da aka buga tare da fasahar Biomarker
1.Circos on chromosome-level genome taro naG. rotundifoliumta hanyar dandalin jerin jerin Nanopore
Wang M et al.,Halittar Halitta da Juyin Halitta, 2021
2. Statistics na Weining hatsin rai genome taro da annotation
Li G et al.,Halitta Halitta, 2021
3.Gene HasashenSechium edulegenome, wanda aka samo daga hanyoyin tsinkaya guda uku:Da novoHasashen, Hasashen Homology da Hasashen tushen bayanan RNA-Seq
Fu A da al.,Binciken Horticulture, 2021
4.Identification na m dogon m maimaita a cikin uku auduga genomes
Wang M et al.,Halittar Halitta da Juyin Halitta, 2021
5.Hi-C taswirar zafi naC. acuminatagenome yana nuna ma'amalar genome-fadi.Ƙarfin hulɗar Hi-C ya yi daidai da tazarar layika tsakanin maƙarƙashiya.Tsaftace madaidaiciyar layi akan wannan taswirar zafin rana yana nuna daidaitaccen ɗigon ƙugiya akan chromosomes.(Rashin daidaitawa mai ci gaba: 96.03%)
kang M et al.,Sadarwar yanayi,2021
BMK Case
Babban taro na genome yana ba da haske game da halayen hatsin rai da kuma mahimman kwayoyin halittar agronomically
Buga: Halitta Halitta, 2021
Dabarun tsarawa:
Haɗin Genome: Yanayin PacBio CLR tare da ɗakin karatu 20 kb (497 Gb, kimanin 63 ×)
Gyaran jeri: NGS tare da ɗakin karatu na DNA na 270 bp (430 Gb, kimanin 54 ×) akan dandalin Illumina
Contigs anchoring: Hi-C library(560 Gb, kimanin 71×) akan dandalin Illumina
Taswirar gani: (779.55 Gb, kimanin 99×) akan Bionano Irys
Sakamako mai mahimmanci
1.An buga taron na Weining hatsin rai genome tare da jimlar genome na 7.74 Gb(98.74% na kimanta girman genome ta hanyar cytometry kwarara).Scaffold N50 na wannan taro ya samu 1.04 Gb.Kashi 93.67% na contigs an samu nasarar kafa su akan 7 pseudo-chromosomes.An kimanta wannan taron ta taswirar haɗin gwiwa, LAI da BUSCO, wanda ya haifar da babban maki a duk kimantawa.
2.Ƙarin karatu a kan kwatankwacin genomics, taswirar haɗin gwiwar kwayoyin halitta, nazarin bayanan da aka yi a kan tushen wannan kwayar halitta.An bayyana jerin halaye masu alaƙa da sifofin kwayoyin halitta waɗanda suka haɗa da kwafin kwayoyin halitta-fadi da tasirin su akan kwayoyin halittun sitaci;Ƙungiya ta zahiri ta hadaddun prolamin loci, fasalulluka nau'ikan maganganun kwayoyin halitta waɗanda ke da alaƙa da yanayin farkon farkon da kuma yankuna masu alaƙa da chromosomal na gida da loci a cikin hatsin rai.
 Zane na Circos akan siffofin genomic na Weining hatsin rai genome |  Binciken juyin halitta da chromosome synteny na kwayar halitta na hatsin rai |
Li, G., Wang, L., Yang, J.da al.Babban taro na genome yana ba da haske game da halayen hatsin rai da kuma mahimman kwayoyin halittar agronomically.Ina Genet 53,574-584 (2021).
doi.org/10.1038/s41588-021-00808-z
