{"id":6661,"date":"2014-09-24T09:47:43","date_gmt":"2014-09-24T02:47:43","guid":{"rendered":"http:\/\/antoansinhhoc.vn\/?p=1623"},"modified":"2014-09-24T09:47:43","modified_gmt":"2014-09-24T02:47:43","slug":"ky-thuat-fish-fluorescence-in-situ-hybridization-va-ky-thuat-om-optical-mapping-co-tac-dung-hieu-chinh-sap-xep-scaffold-trong-genome-cay-ca-chua","status":"publish","type":"post","link":"https:\/\/nbca.gov.vn\/ky-thuat-fish-fluorescence-in-situ-hybridization-va-ky-thuat-om-optical-mapping-co-tac-dung-hieu-chinh-sap-xep-scaffold-trong-genome-cay-ca-chua\/","title":{"rendered":"K\u1ef9 thu\u1eadt FISH (Fluorescence In Situ Hybridization) v\u00e0 k\u1ef9 thu\u1eadt OM (Optical Mapping) c\u00f3 t\u00e1c d\u1ee5ng hi\u1ec7u ch\u1ec9nh s\u1eafp x\u1ebfp \u201cScaffold\u201d trong genome c\u00e2y c\u00e0 chua."},"content":{"rendered":"
\n

Lindsay\u00a0A. Shearer v\u00e0 ctv. (2014) \u0111\u00e3 c\u00f4ng b\u1ed1 t\u00e0i li\u1ec7u khoa h\u1ecdc n\u00e0y tr\u00ean t\u1ea1p ch\u00ed Genes, Genomes, Genetics(G3) v\u00e0o th\u00e1ng T\u00e1m 2014<\/span><\/p>\n<\/div>\n

\n

M\u1ed9t\u00a0scaffold<\/strong>\u00a0l\u00e0 m\u1ed9t ph\u1ea7n c\u1ee7a genome sequence \u0111\u01b0\u1ee3c t\u00e1i t\u1ea1o t\u1eeb c\u00e1c clones trong k\u1ef9 thu\u1eadt shotgun tr\u00ean to\u00e0n b\u1ed9 genome t\u00ednh t\u1eeb \u0111\u1ea7u \u0111\u1ebfn cu\u1ed1i d\u00e2y DNA. Scaffolds bao g\u1ed3m t\u1ea5t c\u1ea3 nh\u1eefng contigs v\u00e0 nh\u1eefng \u0111o\u1ea1n h\u1edf (gaps). Gaps x\u1ea3y ra trong qu\u00e1 tr\u00ecnh \u0111\u1ecdc tr\u00ecnh t\u1ef1 c\u1ee7a m\u00e1y t\u1eeb hai \u0111\u1ea7u tr\u00ecnh t\u1ef1 (two sequenced ends) c\u1ee7a \u00edt nh\u1ea5t m\u1ed9t l\u1ea7n tr\u00f9ng l\u1eadp (overlap) v\u1edbi c\u00e1c k\u1ebft qu\u1ea3 \u0111\u1ecdc kh\u00e1c gi\u1eefa hai contigs kh\u00e1c nhau.<\/p>\n

Th\u1ee9 t\u1ef1 and \u0111\u1ecbnh h\u01b0\u1edbng s\u1eafp x\u1ebfp c\u1ee7a t\u1ea5t c\u1ea3 91 scaffolds \u0111\u00e3 \u0111\u01b0\u1ee3c gi\u1ea3i tr\u00ecnh t\u1ef1 trong 12 ph\u00e2n t\u1eed gi\u1ea3 (pseudomolecules). X\u00e9t theo k\u1ebft qu\u1ea3 tr\u01b0\u1edbc \u0111\u00e2y tr\u00ean c\u00e0 chua (Solanum lycopersicum<\/em>, 2n\u00a0<\/em>= 2x =<\/em>\u00a024), th\u00ec tr\u00ecnh t\u1ef1 genome n\u00e0y \u0111\u00e3 \u0111\u01b0\u1ee3c x\u00e1c \u0111\u1ecbnh v\u1ecb tr\u00ed tr\u00ean c\u01a1 s\u1edf ch\u1ec9 th\u1ecb ph\u00e2n t\u1eed (marker order) trong m\u1ed9t b\u1ea3n \u0111\u1ed3 ph\u00e2n gi\u1ea3i cao (high-density linkage map).<\/p>\n

\u1ede \u0111\u00e2y, c\u00e1c t\u00e1c gi\u1ea3 ghi nh\u1eadn s\u1ef1 s\u1eafp x\u1ebfp nh\u01b0 v\u1eady c\u1ee7a nh\u1eefng scaffolds \u0111\u00e3 \u0111\u01b0\u1ee3c x\u00e1c \u0111\u1ecbnh b\u1edfi hai ph\u01b0\u01a1ng ph\u00e1p v\u1eadt l\u00fd \u0111\u1ed9c l\u1eadp nhau, \u0111\u00f3 l\u00e0 k\u1ef9 thu\u1eadt\u00a0BAC-FISH<\/strong>, \u0111\u01b0\u1ee3c vi\u1ebft t\u1eaft t\u1eeb thu\u1eadt ng\u1ef1 khoa h\u1ecdc\u00a0bacterial artificial chromosome\u2013fluorescence\u00a0in situ<\/em>\u00a0hybridization<\/strong>\u00a0v\u00e0 k\u1ef9 thu\u1eadt\u00a0OP<\/strong>\u00a0vi\u1ebft t\u1eaft t\u1eeb thu\u1eadt ng\u1eef\u00a0optical mapping<\/strong>.\u00a0Nh\u1edd v\u1ecb tr\u00ed c\u1ee7a nh\u1eefng d\u00f2ng BACs t\u1ea1i \u0111\u1ea7u nh\u1eefng scaffolds ng\u01b0\u1eddi ta c\u00f3 th\u1ec3 k\u00e9o d\u00e0i c\u00e1c ph\u1ee9c c\u00f3 t\u00ednh ch\u1ea5t\u00a0synaptonemal<\/strong>\u00a0trong c\u00e0 chua (nhi\u1ec5m s\u1eafc th\u1ec3 \u1edf giai \u0111o\u1ea1n pachytene).<\/p>\n

H\u1ecd \u0111\u00e3 ch\u1ee9ng minh r\u1eb1ng 45 scaffolds, \u0111\u1ea1i di\u1ec7n cho m\u1ed9t ph\u1ea7n ba genome c\u00e0 chua, \u0111\u00e3 \u0111\u01b0\u1ee3c s\u1eafp x\u1ebfp l\u1ea1i \u00a0kh\u00e1c v\u1edbi b\u1ea3n \u0111\u1ed3 linkage tr\u01b0\u1edbc \u0111\u00e2y. Nh\u1eefng scaffolds n\u00e0y x\u1ea3y ra h\u1ea7u h\u1ebft trong \u0111o\u1ea1n nhi\u1ec5m s\u1eafc th\u1ec3 c\u00f3 t\u00ednh ch\u1ea5t\u00a0pericentric heterochromatin,<\/strong>\u00a0\u1edf \u0111\u00f3, 77% genome c\u00e0 chua \u0111\u1ecbnh v\u1ecb. \u1ede \u0111\u00f3, b\u1ea3n \u0111\u1ed3 li\u00ean k\u1ebft gen (linkage map) \u00edt ch\u00ednh x\u00e1c nh\u1ea5t do t\u1ea7n su\u1ea5t qu\u1ea5n ch\u00e9o b\u1ecb suy gi\u1ea3m.<\/p>\n

M\u1eb7c d\u00f9 r\u1ea5t h\u1eefu d\u1ee5ng \u0111\u1ed1i v\u1edbi m\u1ed9t ph\u1ea7n n\u00e0o \u0111\u00f3 c\u1ee7a genome, k\u1ef9 thu\u1eadt \u201coptical mapping<\/strong>\u201d cho k\u1ebft qu\u1ea3 kh\u00e1 to\u00e0n di\u1ec7n so v\u1edbi s\u1ef1 s\u1eafp x\u1ebfp scaffold c\u1ee7a FISH, nh\u01b0ng th\u01b0\u1eddng kh\u00f4ng \u0111\u1ed3ng thu\u1eadn v\u1edbi s\u1eafp x\u1ebfp scaffold tr\u00ean c\u01a1 s\u1edf b\u1ea3n \u0111\u1ed3 li\u00ean k\u1ebft. S\u1ef1 s\u1eafp x\u1ebfp scaffold nh\u01b0 v\u1eady c\u0103n c\u1ee9 tr\u00ean k\u1ef9 thu\u1eadt FISH v\u00e0 OP l\u00e0m thay \u0111\u1ed5i c\u00e1c v\u1ecb tyri1 c\u1ee7a h\u00e0ng tr\u0103m markers trong b\u1ea3n \u0111\u1ed3 li\u00ean k\u1ebft, \u0111\u1eb7c bi\u1ec7t l\u00e0 tr\u00ean nhi\u1ec5m s\u1eafc th\u1ec3\u00a0heterochromatin\u00a0<\/strong>(d\u1ecb nhi\u1ec5m).<\/p>\n

Xem th\u00eam\u00a0\u00a0http:\/\/www.g3journal.org\/content\/4\/8\/1395.abstract?etoc<\/a>
\n\"\"H\u00ecnh:\u00a0<\/u><\/strong>Th\u00ed d\u1ee5 v\u1ec1 \u0111\u1ecbnh v\u1ecb c\u00f9ng m\u1ed9t l\u00fac do FISH v\u1edbi b\u1ed1n d\u00f2ng BACs \u0111\u1ec3 l\u00e0m r\u00f5 ranh gi\u1edbi c\u1ee7a hai scaffolds v\u00e0 \u0111o\u1ea1n h\u1edf gi\u1eefa hai scaffolds tr\u00ean SC 3. V\u00ec s\u1ed1 scaffold c\u0103n c\u1ee9 tr\u00ean b\u1ea3n \u0111\u1ed3 li\u00ean k\u1ebft, hai scaffolds li\u1ec1n k\u1ec1 nhau \u0111\u01b0\u1ee3c \u0111\u00e1nh s\u1ed1 1 v\u00e0 4,trong khi scaffolds 2 v\u00e0 3 \u0111\u01b0\u1ee3c \u0111\u1ecbnh v\u1ecb b\u1eb1ng FISH s\u1ebd c\u00f3 v\u1ecb tr\u00ed tr\u00ean nh\u00e1nh d\u00e0i c\u1ee7a nhi\u1ec5m s\u1eafc th\u1ec3 3.<\/p>\n<\/div>\n","protected":false},"excerpt":{"rendered":"

Lindsay\u00a0A. Shearer v\u00e0 ctv. (2014) \u0111\u00e3 c\u00f4ng b\u1ed1 t\u00e0i li\u1ec7u khoa h\u1ecdc n\u00e0y tr\u00ean t\u1ea1p ch\u00ed Genes, Genomes, Genetics(G3) v\u00e0o th\u00e1ng T\u00e1m 2014 M\u1ed9t\u00a0scaffold\u00a0l\u00e0 m\u1ed9t ph\u1ea7n c\u1ee7a genome sequence \u0111\u01b0\u1ee3c t\u00e1i t\u1ea1o t\u1eeb c\u00e1c clones trong k\u1ef9 thu\u1eadt shotgun tr\u00ean to\u00e0n b\u1ed9 genome t\u00ednh t\u1eeb \u0111\u1ea7u \u0111\u1ebfn cu\u1ed1i d\u00e2y DNA. Scaffolds bao g\u1ed3m t\u1ea5t c\u1ea3 […]\n","protected":false},"author":1,"featured_media":6345,"comment_status":"open","ping_status":"open","sticky":false,"template":"","format":"standard","meta":{"footnotes":""},"categories":[87],"tags":[],"acf":[],"_links":{"self":[{"href":"https:\/\/nbca.gov.vn\/wp-json\/wp\/v2\/posts\/6661"}],"collection":[{"href":"https:\/\/nbca.gov.vn\/wp-json\/wp\/v2\/posts"}],"about":[{"href":"https:\/\/nbca.gov.vn\/wp-json\/wp\/v2\/types\/post"}],"author":[{"embeddable":true,"href":"https:\/\/nbca.gov.vn\/wp-json\/wp\/v2\/users\/1"}],"replies":[{"embeddable":true,"href":"https:\/\/nbca.gov.vn\/wp-json\/wp\/v2\/comments?post=6661"}],"version-history":[{"count":0,"href":"https:\/\/nbca.gov.vn\/wp-json\/wp\/v2\/posts\/6661\/revisions"}],"wp:featuredmedia":[{"embeddable":true,"href":"https:\/\/nbca.gov.vn\/wp-json\/wp\/v2\/media\/6345"}],"wp:attachment":[{"href":"https:\/\/nbca.gov.vn\/wp-json\/wp\/v2\/media?parent=6661"}],"wp:term":[{"taxonomy":"category","embeddable":true,"href":"https:\/\/nbca.gov.vn\/wp-json\/wp\/v2\/categories?post=6661"},{"taxonomy":"post_tag","embeddable":true,"href":"https:\/\/nbca.gov.vn\/wp-json\/wp\/v2\/tags?post=6661"}],"curies":[{"name":"wp","href":"https:\/\/api.w.org\/{rel}","templated":true}]}}