Plants / holoholona de novo Genome Sequenting
De nomvoʻO ka hanaʻana i nā mea e pili ana i ke kūkuluʻana i kahiʻano o nāʻano hana āpau e hoʻohana ana i nāʻenehana sequencing i ka halaʻole o kahiʻano o ka'ōlelo. ʻO ka hoʻopukaʻana a me ka weheʻana i ka heluʻana o ke kolu o ke kolu o ka makahiki, e hōʻike ana i nā mea hou aku, ua hoʻonui nuiʻiaʻo Genone genome ma waena o nā heluhelu ma waena o nā heluhelu ma waena o nā heluhelu ma waena o nā heluhelu ma waena o nā heluhelu ma waena o nā heluhelu ma waena o nā heluhelu ma waena o nā heluhelu. ʻO kēia hoʻonui nuiʻana i kēia manawa e pili ana i ka hanaʻana i nā genonging stenging, e like me ka nui o nā'āina he nui, a me nā wahi kiʻekiʻe wale nō.
Hāʻawi kā mākou hopena hoʻokahi-paʻa hoʻokahi i nā lawelawe raquence a me Biinformatic e hāʻawi ana i kahi kūlana kiʻekiʻe-novo i'ākoakoaʻiaʻo Genome. Hāʻawiʻia kahi loiloi genome me ka maʻi maʻi i nā manaʻo o Genome a me ka paʻakikī, a ua hoʻohanaʻia kēiaʻike i keʻano o ka papa lōʻihide nomvoʻO keʻano o nā hui. ʻO ka hoʻohana hopeʻana o ka hālāwai hic e hiki ai i ka huiʻana o ka hoʻohuiʻana o nā hui i ka genome, e loaʻa ana kahi hālāwai chromosome-pae. ʻO ka mea hope loa,ʻo ka genome i hoʻohuiʻia e ka wana wahine a me ka sequence i hōʻikeʻia a me ka heleʻana i nā mea kūʻai aku a me ka lōʻihi.
Nā hiʻohiʻona lawelawe
● hoʻohui i nāʻoihana he nui a me nā lawelawe bioinformatic a me bioinformatic i kahi hopena hoʻokahi:
Genome Survement me ka maʻi maʻi e hoʻohālikelike ai i ka nui o ka genome genome a ke alakaʻi i nāʻano maʻamau;
Heluhelu lōʻihi i ka halaʻana node nomvoo ka hui o nā hui;
Hi-c s sequening no ka mpromosome wahahee;
mrna seequing no ka annotation o gene;
Ka hōʻoia o ka hui.
● He hana kūpono no ka kūkuluʻana i nā mea hana novel a hoʻomaikaʻi paha i nā mea e pili ana i nāʻano o nāʻano o nā mea hoihoi.
Loaʻa nā lawelawe lawelawe
ʻO ka hoʻomohalaʻana o nā papa hana a me nā bioinformatics ade nomvoʻO ka hālāwai hālāwaiʻo Genome
(Amarasinghe sl et al.Genome biology, 2020)
●ʻO nā loea ikaika a me nā palapala hoʻopukapuka: Ua hōʻiliʻiliʻo BMKGENE i kaʻike nui ma ka hālāwai nui o Gense Mai ka makahiki 2018, ua hāʻawi mākou i luna300 mau hoʻolaha kiʻekiʻe, a 20+ o lākou i paʻiʻia i loko o nā genetics kūlohelohe. ^.
● Hoʻokahi-STOP: Ua hui pū kā mākou hele i hoʻohuiʻia i nāʻenehana loea a me Biinformatic i kahi hana pili i loko o kahi hana nui.
●Tailored i kāu mau pono:ʻO kā mākou lawelawe lawelawe hana i hanaʻia,ʻaeʻia ka hoʻololiʻana no nā genomes no nā hiʻohiʻona a me nā pono noiʻi kūikawā. Hoʻopili kēia me nā genomes nunui, polyploid genomes, nā heterozygous nui, aʻoi aku.
●ʻO Binid Gliled Sliinformastics a me ka huiʻo Laboratorial: Me kaʻike nui ma nā hoʻokolohua maʻamau a me Biinformatics ma mua o nā hana Genome Genome a me kahi papa hana o nā hale kūʻai a me nā polokalamu kope.
●Kākoʻo kākoʻo:Hoʻopili kā mākou kūpaʻaʻana ma mua o ka hoʻopauʻana i kahi papa hana me kahi manawa lawelawe 3-mahina ma hope o ka lawelawe lawelawe. I kēia manawa, hāʻawi aku mākou i nā hana hahai, a me nā manaʻo e hoʻopiʻiʻia i kōkua, a me ke kau e pili ana i nā noi.
Nāʻikepili lawelawe
| Nā hoʻokolokolo Stanome | ʻO ka hālāwai hālāwaiʻo Genome | Chromosome-pae | Genome annome |
| 50x anal anal novaseq Pe150
| 30x Pacbio CCS Hifi Reply | 100x hi-c | Rna-Seo ElmINA Pe150 10 GB + (koho) Piha piha rna-seq pacbio 40 gb a iʻole Nanoopore 12 Gb |
Nā koi lawelawe
No Genome Review,ʻo Ge Studed Stane me ka hālāwai pūʻana o Genome.
| Tissue a iʻole i loaʻa i nā maʻi nuclected | Nā hoʻokolokolo Stanme | ʻO Genome hui me Pacbio | Aloha |
| Nā holoholona holoholona | 0.5-1 g
| ≥ 3.5 g | ≥2 g |
| ʻO nā Musole holoholona | ≥ 5 g | ||
| ʻO ke koko mammania | 15 ml
| ≥ 5 ml | ≥2 ml |
| ʻO ke koko wai / iʻa | ≥ 0.5 ml | ||
| Kūkulu - lau hou | 1-2 g | ≥ 5 g | ≥ 4 g |
| Nā cell creol |
| ≥ 1x108 | ≥ 1x107 |
| INSICT | 0.5-1 g | ≥ 3 g | ≥ 2 g |
| Laweʻia dna | KA MEA: ≥1 NG / μl Nui ≥ 30 NG Palenaʻole a iʻole ka degradation a iʻole ka hopena | Ke kūleʻa: ≥ 50 NG / μl Ka nui: 10 μG / kahe cell cell / simple Od260 / 280 = 1.7-2.2 Od260 / 230 = 1.8-2.5 Palenaʻole a iʻole ka degradation a iʻole ka hopena |
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|
No Genome Assoometion me ka kākau inoaʻana i nā palapala kākau inoa:
| Tissue a iʻole i loaʻa i nā maʻi nuclected | Ua hoʻomaopopoʻo Illumina i ke kākau inoa | ʻO ka clogcbtomome | Nanapode transctome |
| Kūkulu - aa / stem / petal | 450 mg | 600 mg | |
| Mea kanu - lau / fro | 300 mg | 300 mg | |
| Māla - hua | 1.2 g | 1.2 g | |
| Nā Pōhaku Wahine / instentine | 300 mg | 300 mg | |
| Holoholona viscera / brain | 240 mg | 240 mg | |
| ʻO nā Musole holoholona | 450 mg | 450 mg | |
| Nā iwi holoholona / lauoho /ʻili | 1 g | 1 g | |
| Artrropod | 6 | 6 | |
| ʻO Arthurpod -crustacea | 300 mg | 300 mg | |
| Koko koko | 1 Tube | 1 Tube | |
| Ua lawe i ka rna | KAHAKAU: ≥ 20 NG / μl Nui ≥ 0.3 μg Od260 / 280 = 1.7-2.5 Od260 / 230 = 0.5-2.5 RIN≥ 6 51528s / 18seron15 | Ke kūleʻa: ≥ 100 NG / μl Nui ≥ 0.75 μg Od260 / 280 = 1.7-2.5 Od260 / 230 = 0.5-2.5 RIN≥ 8 51528s / 18seron15 | Ke kūleʻa: ≥ 100 NG / μl Nui ≥ 0.75 μg Od260 / 280 = 1.7-2.5 Od260 / 230 = 0.5-2.5 RIN≥ 7.5 51528s / 18seron15 |
Hōʻikeʻia ka hoʻounaʻana
Nā pahu: 2 ML Cetrifuge Tube (Tin Foilʻaʻole i aʻoʻia)
(No ka hapa nui o nā hiʻohiʻona,ʻaʻole mākou e mālama e mālama i ka ethanol.)
ʻO Sample Labelling: Pono e hoʻopiliʻia nā'āpana i kaʻike a me ka like i ka palapalaʻike i hoʻounaʻia.
Hoʻouna:ʻO ka hau maloʻo: Pono nā spectles i nāʻeke i nāʻeke mua a kanuʻia ma ka maloʻo maloʻo.
Kahawai
E holo ka lawelawe lawelawe
Hoʻolālā hoʻokolohua
Nā Hoʻounaʻana
DNA Exction
Hana ka waihona puke
Hoahewa ana
Nāʻikepiliʻikepili
Ma hope o nā lawelawe kūʻai
Hoʻopiha i nā loiloi bioinformatic, hoʻokaʻawale i loko o nā'āpana 4:
1)ʻO Genome Survey, e pili ana i ka loiloi K-men me NGS e heluhelu ana:
Ka manaʻo o ka nui genome
Ka manaʻo o ka heterozygosity
Kuhi o nā wahi hana hou
2) Genome Start me Pacbio Hifi:
De nomvoKāhea
ʻO ka nānāʻana o ka hālāwai: me nā loiloi busco no ka hoʻopihaʻana o ka genome piha a me ka paleʻana i hope o nā ngs a me nā pacbio hifi
3) Hi-C Hui:
Aloha-C Pūnaewele QC: Estimation o nā hui Hi-C
Hi-C Scet: clustering o nā hui i nā hui, hahaiʻia e ka concig kauoha i loko o kēlā me kēia hui
Hi-c loiloi
4) Genome Annotation:
ʻO ka wānana non-cona wānana
ʻO nā hōʻike koho baquence iʻikeʻia (transposons a me nā tandem hou aku)
WELE WELIE
§De nomvo: ab insio algorithms
§ e pili ana i ka homology
§ Ma muli o ke kākau inoaʻana, me nā heluhelu lōʻihi a lōʻihide nomvoUa hōʻuluʻuluʻia a iʻole i hoʻopiliʻia i ka draft genome
§ʻO ka loaʻaʻana o nā hua'ōlelo i wānanaʻia me nāʻikepili he nui
1) Genome Survey- K-Mercyis
2) Genome Sispment
2) Genome Gourss
2) Hi-C GAME - ESATIBTION O KA GIFT ONTRAICAL MAUA
3) Hi-C post-Sepate loiloi
4) Genome Ancodent - hoʻohui pūʻana o nā hua'ōlelo i wānanaʻia
4) genome exnotation - wānana i nā hua'ōlelo genes
Eʻimi i nā mea holomua i hoʻomaikaʻiʻia e BMKGENE's C BMKGEE's DE NOVO GENEM SPEPORT ma kahi hōʻiliʻili o nā paʻi.
Li, c. et al. (2021) 'ʻO nā Koho Genome e hōʻike ana i nā alahele o Global a hōʻike i nā hoʻololiʻana o Green Doi: 10.1038 / S41467-021-21379-x.
Li, y. et al. (2023) 'ʻO nā loli nui nui o ka chromosmal e alakaʻi i nā loli nui o Genome-pae Doi: 10.1093 / Molbev / MSAD006.
Tian, t. et al. (2023) 'Gonome hui a me keʻano Genetic o kahi hana hilahila mai kahi germant Doi: 10.1038 / s41588-023-01297-y.
Zhang, f. et al. (2023)ʻO ka hoʻolahaʻana o Truolut o Tropane Alkaloid bioysnthesis ma ka nānāʻana iʻelua mau genomes Doi: 10.10338 / S4147-023-37133-4.
Nā hihia paʻakikī-Studies:
ʻO Talmere-i-telomerore Spiet:Fu, A. Et et al. (2023) 'Tylomere-to-telomere genter genter melot (momordica sistactic a me nā mea noiʻi genetic a me nā mea noiʻi genetic a me nā mea noiʻi genetic Doi: 10.1093 / hr / Uhac228.
ʻO Happlotype hui:Hu, W. et al. (2021) 'Aclele-i weheweheʻiaʻo Genote Genome e hōʻike i nā mea e like me ka mea kanu calleval Doi: 10.1016 / J.molP.2021.04.04.04.009.
ʻO ka hālāwai nui o Gianatome:Yuan, J. et al. (2022) 'Genomic kumu o nā giga-chromosmes a me Giga-Genome o ka lāʻau pony payi' Doi: 10.1038 / S41467-022-35063-1.
Polyploid Genome:Zhang, Q. Et et al. (2022) 'Genomic Insights i loko o ka hoʻemiʻana o ka chromatome i kēia manawaʻo Jortopolyploim sporcharLim', 785-896. Doi: 10.1038 / s41588-022-01084-1.
