Hi-C tushen Genome Assembly
Amfanin Sabis
Rahoton da aka ƙayyade na Hi-C
(Lieberman-Aiden E et al.,Kimiyya, 2009)
● Babu buƙatar gina yawan kwayoyin halitta don haɓakawa;
● Maɗaukakin alamar alama mai girma wanda ke haifar da mafi girman ma'auni mai ma'ana a sama da 90%;
● Yana ba da damar kimantawa da gyare-gyare akan tarukan kwayoyin halitta;
● Gajeren lokacin juyawa tare da daidaito mafi girma a cikin taron genome;
● Ƙwarewa mai yawa tare da ɗakunan karatu sama da 1000 Hi-C da aka gina don fiye da nau'in 500;
Sama da shari'o'i 100 masu nasara tare da tasirin tasirin da aka buga sama da 760;
● Hi-C tushen genome taro don polyploid genome, an samu 100% anchoring rate a baya aikin;
● Haƙƙin mallaka na cikin gida da haƙƙin mallaka na software don gwaje-gwajen Hi-C da nazarin bayanai;
● Ƙirƙirar software na gyara bayanan da aka gani, yana ba da damar toshe motsi na hannu, juyawa, sokewa da sake yi.
Ƙayyadaddun Sabis
|
Nau'in Laburare
|
Dandalin | Tsawon Karatu | Bayar da Dabarun |
| Hi-C | Illumina NovaSeq | PE150 | ≥ 100X |
Binciken bioinformatics
● Raw data ingancin kula
● Kula da ingancin ɗakin karatu na Hi-C
● Hi-C tushen taron kwayoyin halitta
● Ƙimar bayan taro
Samfuran Bukatun da Bayarwa
Samfuran Bukatun:
| Dabba | Naman gwari | Tsire-tsire
|
| Nama mai daskarewa: 1-2g kowane ɗakin karatu Kwayoyin: 1 x 10^7 sel a kowane ɗakin karatu | Daskararre nama: 1g kowane ɗakin karatu | Nama mai daskarewa: 1-2g kowane ɗakin karatu
|
| *Muna ba da shawarar tura aƙalla 2 aliquots (1 g kowace) don gwajin Hi-C. | ||
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 Biomarker Technologies
1.Hi-C hulɗar taswirar zafi naCamptotheca acuminatakwayoyin halitta.Kamar yadda aka nuna akan taswira, tsananin ma'amala yana da alaƙa mara kyau tare da nisa na layi, wanda ke nuna daidaitaccen taro-matakin chromosome.(Ratin Ƙarfafawa: 96.03%)
Kang M et al.,Sadarwar yanayi, 2021
2.Hi-C ya sauƙaƙe tabbatar da inversions tsakaninGossypium hirsutumL. TM-1 A06 daG. arboreumChr06
Yang Z et al.,Sadarwar yanayi, 2019
3.Assembly da bialelic bambanci na rogo genome SC205.Hi-C taswirar zafin rana an nuna tsattsage tsaga a cikin chromosomes masu kama da juna.
Hu W et al.,Shuka Kwayoyin Halitta, 2021
4.Hi-C hotmap akan nau'in nau'in Ficus guda biyu:F.microcarpa(rabo anchoring: 99.3%) daF.hispida (rabo mai daidaitawa: 99.7%)
Zhang X et al.,Cell, 2020
BMK Case
Kwayoyin Halitta na Bishiyar Banyan da Pollinator Wasp suna ba da haske game da Juyin Halitta na Fifa.
Buga: Cell, 2020
Dabarun tsarawa:
F. microcarpa kwayoyin halitta: Kimanin.84 X PacBio RSII (36.87 Gb) + Hi-C (44 Gb)
F. hispidakwayoyin halitta: Kimanin.97 X PacBio RSII (36.12 Gb) + Hi-C (60 Gb)
Eupristina verticillatakwayoyin halitta: Kimanin.170 X PacBio RSII (65 Gb)
Sakamako mai mahimmanci
1. Biyu banyan itace genomes da kuma pollinator wasp genome daya aka gina ta amfani da PacBio sequencing, Hi-C da linkage map.
(1)F. microcarpagenome: An kafa wani taro na 426 Mb (97.7% na ƙididdigan girman kwayoyin halitta) tare da ci gaba da N50 na 908 Kb, maki BUSCO na 95.6%.A cikin jimlar 423 Mb an daidaita su zuwa chromosomes 13 ta Hi-C.Bayanin Genome ya samar da kwayoyin halittar furotin 29,416.
(2)F. Hispidagenome: Taro na 360 Mb (97.3% na kiyasin girman genome) ya sami albarkar N50 na 492 Kb da BUSCO na 97.4%.Jimlar jeri 359 Mb aka kafa akan chromosomes 14 ta Hi-C kuma sun yi kama da taswirar haɗin kai mai girma.
(3)Eupristina verticillatagenome: An kafa wani taro na 387 Mb (Kimanin genome size: 382 Mb) tare da ci gaba da N50 na 3.1 Mb da BUSCO na 97.7%.
2.Comparative genomics bincike ya bayyana babban adadin bambance-bambancen tsarin tsakanin biyuFicusgenomes, wanda ya ba da albarkatun kwayoyin halitta masu kima don nazarin juyin halitta masu daidaitawa.Wannan binciken, a karon farko, ya ba da haske game da juyin halittar Fig-wasp a matakin genomic.
 Zane na Circos akan siffofin genomic na biyuFicusGenomes, gami da chromosomes, kwafi na yanki (SDs), transposons (LTR, TEs, DNA TEs), maganganun kwayoyin halitta da synteny |  Gane nau'in chromosome na Y da jinsin ɗan takara na ƙayyadaddun jinsi |
Zhang, X., da dai sauransu."Gomemes na Bishiyar Banyan da Pollinator Wasp suna ba da haske game da juyin halittar Fig-Wasp."Cell 183.4 (2020).
