| |
|
|
 | Acesso ao texto completo restrito à biblioteca da Embrapa Café. Para informações adicionais entre em contato com biblioteca@embrapa.br. |
|
Registro Completo |
|
Biblioteca(s): |
Embrapa Café. |
|
Data corrente: |
25/01/2022 |
|
Data da última atualização: |
11/04/2022 |
|
Tipo da produção científica: |
Artigo em Periódico Indexado |
|
Autoria: |
CINTRA, L. A.; SOUZA, T. B. de; PARTEKA, L. M.; BARRETO, L. M.; PEREIRA, L. F. P.; GAETA, M. L.; GUYOT, R.; VANZELA, A. L. L. |
|
Afiliação: |
LEONARDO ADABO CINTRA, UNIVERSIDADE ESTADUAL DE LONDRINA; THAÍSSA BOLDIERI DE SOUZA, UNIVERSIDADE ESTADUAL DE LONDRINA; LETÍCIA MARIA PARTEKA, UNIVERSIDADE ESTADUAL DE LONDRINA; LUCAS MESQUITA BARRETO, UNIVERSIDADE ESTADUAL DE LONDRINA; LUIZ FILIPE PROTASIO PEREIRA, CNPCa; MARCOS LETAIF GAETA, UNIVERSIDADE ESTADUAL DE LONDRINA; ROMAIN GUYOT, CIRAD; ANDRÉ LUÍS LAFORGA VANZELA, UNIVERSIDADE ESTADUAL DE LONDRINA. |
|
Título: |
An 82 bp tandem repeat family typical of 3' non-coding end of Gypsy/TAT LTR retrotransposons is conserved in Coffea spp. pericentromeres. |
|
Ano de publicação: |
2021 |
|
Fonte/Imprenta: |
Genome, v.65, n. 3, p. 137-181, 2021. |
|
DOI: |
https://doi.org/10.1139/gen-2021-0045 |
|
Idioma: |
Inglês |
|
Notas: |
Date of Electronic Publication: 2021 Nov 02. |
|
Conteúdo: |
Coffea spp. chromosomes are very small and accumulate a variety of repetitive DNA families around the centromeres. However, the proximal regions of Coffea chromosomes remain poorly understood, especially regarding the nature and organisation of the sequences. Taking advantage of the genome sequences of C. arabica (2n = 44), C. canephora, and C. eugenioides (C. arabica progenitors with 2n = 22) and good coverage genome sequencing of dozens of other wild Coffea spp., repetitive DNA sequences were identified, and the genomes were compared to decipher particularities of pericentromeric structures. The searches revealed a short tandem repeat (82 bp length) typical of Gypsy/TAT LTR retrotransposons, named Coffea_sat11. This repeat organises clusters with fragments of other transposable elements, comprising regions of non-coding RNA production. Cytogenomic analyses showed that Coffea_sat11 extends from the pericentromeres towards the middle of the chromosomal arms. This arrangement was observed in the allotetraploid C. arabica chromosomes, as well as in its progenitors. This study improves our understanding of the role of the Gypsy/TAT LTR retrotransposon lineage in the organisation of Coffea pericentromeres, as well as the conservation of Coffea_sat11 within the genus. The relationships between fragments of other transposable elements and the functional aspects of these sequences on the pericentromere chromatin were also evaluated. Highlights: A scattered short tandem repeat, typical of Gypsy/TAT LTR retrotransposons, associated with several fragments of other transposable elements, accumulates in the pericentromeres of Coffea chromosomes. This arrangement is preserved in all clades of the genus and appears to have a strong regulatory role in the organisation of chromatin around centromeres. MenosCoffea spp. chromosomes are very small and accumulate a variety of repetitive DNA families around the centromeres. However, the proximal regions of Coffea chromosomes remain poorly understood, especially regarding the nature and organisation of the sequences. Taking advantage of the genome sequences of C. arabica (2n = 44), C. canephora, and C. eugenioides (C. arabica progenitors with 2n = 22) and good coverage genome sequencing of dozens of other wild Coffea spp., repetitive DNA sequences were identified, and the genomes were compared to decipher particularities of pericentromeric structures. The searches revealed a short tandem repeat (82 bp length) typical of Gypsy/TAT LTR retrotransposons, named Coffea_sat11. This repeat organises clusters with fragments of other transposable elements, comprising regions of non-coding RNA production. Cytogenomic analyses showed that Coffea_sat11 extends from the pericentromeres towards the middle of the chromosomal arms. This arrangement was observed in the allotetraploid C. arabica chromosomes, as well as in its progenitors. This study improves our understanding of the role of the Gypsy/TAT LTR retrotransposon lineage in the organisation of Coffea pericentromeres, as well as the conservation of Coffea_sat11 within the genus. The relationships between fragments of other transposable elements and the functional aspects of these sequences on the pericentromere chromatin were also evaluated. Highlights: A scattered short tandem repeat, typi... Mostrar Tudo |
|
Thesaurus Nal: |
Chromosomes; Coffea; DNA probes; Genome. |
|
Categoria do assunto: |
-- |
|
Marc: |
LEADER 02675naa a2200277 a 4500
001 2139296
005 2022-04-11
008 2021 bl uuuu u00u1 u #d
024 7 $ahttps://doi.org/10.1139/gen-2021-0045$2DOI
100 1 $aCINTRA, L. A.
245 $aAn 82 bp tandem repeat family typical of 3' non-coding end of Gypsy/TAT LTR retrotransposons is conserved in Coffea spp. pericentromeres.$h[electronic resource]
260 $c2021
500 $aDate of Electronic Publication: 2021 Nov 02.
520 $aCoffea spp. chromosomes are very small and accumulate a variety of repetitive DNA families around the centromeres. However, the proximal regions of Coffea chromosomes remain poorly understood, especially regarding the nature and organisation of the sequences. Taking advantage of the genome sequences of C. arabica (2n = 44), C. canephora, and C. eugenioides (C. arabica progenitors with 2n = 22) and good coverage genome sequencing of dozens of other wild Coffea spp., repetitive DNA sequences were identified, and the genomes were compared to decipher particularities of pericentromeric structures. The searches revealed a short tandem repeat (82 bp length) typical of Gypsy/TAT LTR retrotransposons, named Coffea_sat11. This repeat organises clusters with fragments of other transposable elements, comprising regions of non-coding RNA production. Cytogenomic analyses showed that Coffea_sat11 extends from the pericentromeres towards the middle of the chromosomal arms. This arrangement was observed in the allotetraploid C. arabica chromosomes, as well as in its progenitors. This study improves our understanding of the role of the Gypsy/TAT LTR retrotransposon lineage in the organisation of Coffea pericentromeres, as well as the conservation of Coffea_sat11 within the genus. The relationships between fragments of other transposable elements and the functional aspects of these sequences on the pericentromere chromatin were also evaluated. Highlights: A scattered short tandem repeat, typical of Gypsy/TAT LTR retrotransposons, associated with several fragments of other transposable elements, accumulates in the pericentromeres of Coffea chromosomes. This arrangement is preserved in all clades of the genus and appears to have a strong regulatory role in the organisation of chromatin around centromeres.
650 $aChromosomes
650 $aCoffea
650 $aDNA probes
650 $aGenome
700 1 $aSOUZA, T. B. de
700 1 $aPARTEKA, L. M.
700 1 $aBARRETO, L. M.
700 1 $aPEREIRA, L. F. P.
700 1 $aGAETA, M. L.
700 1 $aGUYOT, R.
700 1 $aVANZELA, A. L. L.
773 $tGenome$gv.65, n. 3, p. 137-181, 2021.
Download
Esconder MarcMostrar Marc Completo |
|
Registro original: |
Embrapa Café (CNPCa) |
|
|
Biblioteca |
ID |
Origem |
Tipo/Formato |
Classificação |
Cutter |
Registro |
Volume |
Status |
URL |
Voltar
|
|
|
| Registros recuperados : 7 | |
| 1. |  | CINTRA, L. A.; SOUZA, T. B. de; PARTEKA, L. M.; BARRETO, L. M.; PEREIRA, L. F. P.; GAETA, M. L.; GUYOT, R.; VANZELA, A. L. L. An 82 bp tandem repeat family typical of 3' non-coding end of Gypsy/TAT LTR retrotransposons is conserved in Coffea spp. pericentromeres. Genome, v.65, n. 3, p. 137-181, 2021. Date of Electronic Publication: 2021 Nov 02.| Tipo: Artigo em Periódico Indexado | Circulação/Nível: B - 1 |
| Biblioteca(s): Embrapa Café. |
|    |
| 2. | | SANT'ANA, G. C.; PEREIRA, L. F. P.; POT, D.; IVAMOTO, S. T.; DOMINGUES, D. S.; FERREIRA, R. V.; PAGIATTO, N. F.; SILVA, B. S. R. da; NOGUEIRA, L. M.; KITZBERGER, C. S. G.; SCHOLZ, M. B. S.; OLIVEIRA, F. F. de; SERA, G. H.; PADILHA, L.; LABOUISSE, J-P.; GUYOT, R.; CHARMETANT, P.; LEROY, T. Genome-wide association study reveals candidate genes influencing lipids and diterpenes contents in Coffea arabica L . Scientific Reports, v. 8, n. 465, p. 1-12, 2018| Tipo: Artigo em Periódico Indexado | Circulação/Nível: A - 1 |
| Biblioteca(s): Embrapa Café. |
|  |
| 3. | | KOCHKO, A. de; CROUZILLAT, D.; RIGOREAU, M.; LEPELLEY, M.; BELLANGER, L.; L'ANTHOENE, V. M.; VANDECASTEELE, C.; GUYOT, R.; PONCET, V.; TRANCHANT, C.; HAMON, P.; HAMON, S.; COUTURON, E.; DESCOMBES, P.; MOINE, D.; MUELLER, L.; STRICKLER, S. R.; ANDRADE, A.; PEREIRA, L. F. P.; MARRACCINI, P.; GIULIANO, G.; FIORE, A.; PIETRELLA, M.; APREA, G.; MING, R.; WAI, J.; DOMINGUES, D. S.; PASCHOAL, A.; KUHN, G.; KORLACH, J.; CHIN, J.; SANKOFF, D.; ZHENG, C.; ALBERT, V. A. Dihaploid Coffea arabica genome sequencing and assembly. In: PLANT AND ANIMAL GENOME CONFERENCE, 23., 2015, San Diego, CA, USA. [Annals...]. [s.l], 2015.| Tipo: Resumo em Anais de Congresso |
| Biblioteca(s): Embrapa Café. |
| |
| 4. | | SANTOS, T. B. dos; SOARES, J. D. M.; LIMA, J. E.; SILVA, J. C.; IVAMOTO, S. T.; BABA, V. Y.; SOUZA, S. G. H.; LORENZETTI, A. P. R.; PASCHOAL, A. R.; MEDA, A. R.; NISHIYAMA JÚNIOR, M. Y.; OLIVEIRA, U. C. de; MOKOCHINSKI, J. B.; GUYOT, R.; JUNQUEIRA-DE-AZEVEDO, I. L. M.; FIGUEIR, A. V. O.; MAZZAFERA, P.; R. JÚNIO, O.; VIEIRA, L. G. E.; PEREIRA, L. F. P.; DOMINGUES, D. S. An integrated analysis of mRNA and sRNA transcriptional profiles in Coffea arabica L. roots: insights on nitrogen starvation responses. Functional & Integrative Genomics, v. 19, n. 1, p. 151-169, January, 2019| Tipo: Artigo em Periódico Indexado |
| Biblioteca(s): Embrapa Café. |
| |
| 5. | | MUELLER, L.; STRICKLER, S.; DOMINGUES, D.; PEREIRA, L.; ANDRADE, A.; MARRACCINI, P.; MING, R.; WAI, J.; ALBERT, V.; GIULIANO, G.; FIORE, A.; PIETRELLA, M.; APREA, G.; DESCOMBES, P.; MOINE, D.; GUYOT, R.; PONCET, V.; HAMON, P.; HAMON, S.; TRANCHANT, C.; COUTURON, E.; KOCHKO, A. de; LEPELLEY, M.; BELLANGER, L.; MEROT-L'ANTHOENE, V.; VANDECASTEELE, C.; RIGOREAU, M.; CROUZILLAT, D.; PASCHOAL, A. R.; SANKOFF, D.; ZHENG, C.; KUHN, G.; KORLACH, J.; CHIN, J. Towards a better understanding of the Coffea Arabica genome structure. In: INTERNATIONAL CONFERENCE ON COFFEE SCICENCE, 25., 2014, Armenia, Colombia. Proceedings... Udine: Cogito, 2015. p. 42-45| Tipo: Artigo em Anais de Congresso |
| Biblioteca(s): Embrapa Café. |
| |
| 6. | | SALOJÄRVI.; RAMBANI, A.; YU, Z.; GUYOT, R.; STRICKLER, S.; LEPELLEY, M.; WANG, C.; RAJARAMAN, S.; RASTAS, P.; ZHENG, C.; MUÑOZ, D. S.; MEIDANIS, J.; PASCHOAL, A. R.; BAWIN, Y.; KRABBENHOFT, T. J.; WANG, Z. Q.; FLECK, S. J.; AUSSEL, R.; BELLANGER, L.; CHARPAGNE, A.; FOURNIER, C.; KASSAM, M.; LEFEBVRE, G.; MÉTAIRON, S.; MOINE, D.; RIGOREAU, M.; STOLTE, J.; HAMON, P.; COUTURON, E.; TRANCHANT-DUBREUIL, C.; MUKHERJEE, M.; LAN, T.; ENGELHARDT, J.; STADLER, P.; LEMOS, S. M. C. de; SUZUKI, S. I.; SUMIRAT, U.; WAI, C. M.; DAUCHOT, N.; OROZCO-ARIAS, S.; GARAVITO, A.; KIWUKA, C.; MUSOLI, P.; NALUKENGE, A.; GUICHOUX, E.; REINOUT, H.; SMIT, M.; CARRETERO-PAULET, L.; GUERREIRO FILHO, O.; BRAGHINI, M. T.; PADILHA, L.; SERA, G. H.; RUTTINK, T.; HENRY, R.; MARRACCINI, P.; PEER, Y. V. de; ANDRADE, A. C.; DOMINGUES, D.; GIULIANO, G.; MUELLER, L.; PEREIRA, L. F. P.; PLAISANCE, S.; PONCET, V.; ROMBAUTS, S.; SANKOFF, D.; ALBERT, V. A.; CROUZILLAT, D.; KOCHKO, A. de; DESCOMBES, P. The genome and population genomics of allopolyploid Coffea arabica reveal the diversification history of modern coffee cultivars. Nature Genetics, v. 56, n. 4, p. 721-731, 2024.| Tipo: Artigo em Periódico Indexado | Circulação/Nível: A - 1 |
| Biblioteca(s): Embrapa Café. |
| |
| 7. | | DENOEUD, F.; CARRETERO-PAULET, L.; DEREEPER, A.; DROC, G.; GUYOT, R.; PIETRELLA, M.; ZHENG, C.; ALBERTI, A.; ANTHONY, F.; APREA, G.; AURY, J. M.; BENTO, P.; BERNARD, M.; BOCS, S.; CAMPA, C.; CENCI, A.; COMBES, M. C.; CROUZILLAT, D.; SILVA, C. da; DADDIEGO, L.; BELLIS, F. de; DUSSERT, S.; GARSMEUR, O.; GAYRAUD, T.; GUIGNON, V.; JAHN, K.; JAMILLOUX, V.; JOËT, T.; LABADIE, K.; LAN, T.; LECLERCQ, J.; LEPELLEY, M.; LEROY, T.; LI, L. T.; LIBRADO, P.; LOPEZ, L.; MUÑOZ, A.; NOEL, B.; PALLAVICINI, A.; PERROTTA, G.; PONCET, V.; POT, D.; PRIYONO; RIGOREAU, M.; ROUARD, M.; ROZAS, J.; TRANCHANT-DUBREUIL, C.; VANBUREN, R.; ZHANG, Q.; ANDRADE, A. C.; ARGOUT, X.; BERTRAND, B.; KOCHKO, A. de; GRAZIOSI, G.; HENRY, R. J.; JAYARAMA; MING, R.; NAGAI, C.; ROUNSLEY, S.; SANKOFF, D.; GIULIANO, G.; ALBERT, V. A.; WINCKER, P.; LASHERMES, P. The coffee genome provides insight into the convergent evolution of caffeine biosynthesis. Science, v. 345, n. 6201, p. 1181-1184, 2014.| Tipo: Artigo em Periódico Indexado | Circulação/Nível: A - 1 |
| Biblioteca(s): Embrapa Recursos Genéticos e Biotecnologia. |
| |
| Registros recuperados : 7 | |
|
| Nenhum registro encontrado para a expressão de busca informada. |
|
|
