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 | Acesso ao texto completo restrito à biblioteca da Embrapa Suínos e Aves. Para informações adicionais entre em contato com cnpsa.biblioteca@embrapa.br. |
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Registro Completo |
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Biblioteca(s): |
Embrapa Suínos e Aves. |
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Data corrente: |
16/11/2021 |
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Data da última atualização: |
16/11/2021 |
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Tipo da produção científica: |
Artigo em Periódico Indexado |
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Autoria: |
SAVOLDI, I. R.; IBELLI, A. M. G.; CANTAO, M. E.; PEIXOTO, J. de O.; MORES, M. A. Z.; LAGOS, E. B.; LOPES, J. S.; ZANELLA, R.; LEDUR, M. C. |
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Afiliação: |
IGOR RICARDO SAVOLDI, UDESC/Chapecó; ADRIANA MERCIA GUARATINI IBELLI, CNPSA; MAURICIO EGIDIO CANTAO, CNPSA; JANE DE OLIVEIRA PEIXOTO, CNPSA; MARCOS ANTONIO ZANELLA MORES, CNPSA; ESSAMAI BRIZOLA LAGOS, UEPG; JADER SILVA LOPES, BRF/Curitiba; RICARDO ZANELLA, UPF; MONICA CORREA LEDUR, CNPSA. |
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Título: |
A joint analysis using exome and transcriptome data identifiescandidate polymorphisms and genes involved with umbilical hernia in pigs. |
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Ano de publicação: |
2021 |
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Fonte/Imprenta: |
BMC Genomics, v. 22, n. 818, 2021. |
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DOI: |
https://doi.org/10.1186/s12864-021-08138-4 |
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Idioma: |
Inglês |
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Conteúdo: |
Abstract: Background: Umbilical Hernia (UH) is characterized by the passage of part of the intestine through the umbilical canal forming the herniary sac. There are several potential causes that can lead to the umbilical hernia such as bacterial infections, management conditions and genetic factors. Since the genetic components involved with UH are poorly understood, this study aimed to identify polymorphisms and genes associated with the manifestation of umbilical hernia in pigs using exome and transcriptome sequencing in a case and control design. Results: In the exome sequencing, 119 variants located in 58 genes were identified differing between normal and UH-affected pigs, and in the umbilical ring transcriptome, 46 variants were identified, located in 27 genes. Comparing the two methodologies, we obtained 34 concordant variants between the exome and transcriptome analyses, which were located in 17 genes, distributed in 64 biological processes (BP). Among the BP involved with UH it is possible to highlight cell adhesion, cell junction regulation, embryonic morphogenesis, ion transport, muscle contraction, within others. Conclusions: We have generated the first exome sequencing related to normal and umbilical hernia-affected pigs, which allowed us to identify several variants possibly involved with this disorder. Many of those variants present in the DNA were confirmed with the RNA-Seq results. The combination of both exome and transcriptome sequencing approaches allowed us to better understand the complex molecular mechanisms underlying UH in pigs and possibly in other mammals, including humans. Some variants found in genes and other regulatory regions are highlighted as strong candidates to the development of UH in pigs and should be further investigated. MenosAbstract: Background: Umbilical Hernia (UH) is characterized by the passage of part of the intestine through the umbilical canal forming the herniary sac. There are several potential causes that can lead to the umbilical hernia such as bacterial infections, management conditions and genetic factors. Since the genetic components involved with UH are poorly understood, this study aimed to identify polymorphisms and genes associated with the manifestation of umbilical hernia in pigs using exome and transcriptome sequencing in a case and control design. Results: In the exome sequencing, 119 variants located in 58 genes were identified differing between normal and UH-affected pigs, and in the umbilical ring transcriptome, 46 variants were identified, located in 27 genes. Comparing the two methodologies, we obtained 34 concordant variants between the exome and transcriptome analyses, which were located in 17 genes, distributed in 64 biological processes (BP). Among the BP involved with UH it is possible to highlight cell adhesion, cell junction regulation, embryonic morphogenesis, ion transport, muscle contraction, within others. Conclusions: We have generated the first exome sequencing related to normal and umbilical hernia-affected pigs, which allowed us to identify several variants possibly involved with this disorder. Many of those variants present in the DNA were confirmed with the RNA-Seq results. The combination of both exome and transcriptome sequencing approaches allowed ... Mostrar Tudo |
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Palavras-Chave: |
Defeitos congênitos; Hérnia umbilical; RNA sequencing; RNA-Seq; Sequenciamento de exoma; SNP. |
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Thesagro: |
Abacate; Genética Animal; Suíno. |
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Thesaurus Nal: |
Animal genetics; Sequence analysis; Single nucleotide polymorphism; Swine. |
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Categoria do assunto: |
-- |
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Marc: |
LEADER 02916naa a2200385 a 4500
001 2136149
005 2021-11-16
008 2021 bl uuuu u00u1 u #d
024 7 $ahttps://doi.org/10.1186/s12864-021-08138-4$2DOI
100 1 $aSAVOLDI, I. R.
245 $aA joint analysis using exome and transcriptome data identifiescandidate polymorphisms and genes involved with umbilical hernia in pigs.$h[electronic resource]
260 $c2021
520 $aAbstract: Background: Umbilical Hernia (UH) is characterized by the passage of part of the intestine through the umbilical canal forming the herniary sac. There are several potential causes that can lead to the umbilical hernia such as bacterial infections, management conditions and genetic factors. Since the genetic components involved with UH are poorly understood, this study aimed to identify polymorphisms and genes associated with the manifestation of umbilical hernia in pigs using exome and transcriptome sequencing in a case and control design. Results: In the exome sequencing, 119 variants located in 58 genes were identified differing between normal and UH-affected pigs, and in the umbilical ring transcriptome, 46 variants were identified, located in 27 genes. Comparing the two methodologies, we obtained 34 concordant variants between the exome and transcriptome analyses, which were located in 17 genes, distributed in 64 biological processes (BP). Among the BP involved with UH it is possible to highlight cell adhesion, cell junction regulation, embryonic morphogenesis, ion transport, muscle contraction, within others. Conclusions: We have generated the first exome sequencing related to normal and umbilical hernia-affected pigs, which allowed us to identify several variants possibly involved with this disorder. Many of those variants present in the DNA were confirmed with the RNA-Seq results. The combination of both exome and transcriptome sequencing approaches allowed us to better understand the complex molecular mechanisms underlying UH in pigs and possibly in other mammals, including humans. Some variants found in genes and other regulatory regions are highlighted as strong candidates to the development of UH in pigs and should be further investigated.
650 $aAnimal genetics
650 $aSequence analysis
650 $aSingle nucleotide polymorphism
650 $aSwine
650 $aAbacate
650 $aGenética Animal
650 $aSuíno
653 $aDefeitos congênitos
653 $aHérnia umbilical
653 $aRNA sequencing
653 $aRNA-Seq
653 $aSequenciamento de exoma
653 $aSNP
700 1 $aIBELLI, A. M. G.
700 1 $aCANTAO, M. E.
700 1 $aPEIXOTO, J. de O.
700 1 $aMORES, M. A. Z.
700 1 $aLAGOS, E. B.
700 1 $aLOPES, J. S.
700 1 $aZANELLA, R.
700 1 $aLEDUR, M. C.
773 $tBMC Genomics$gv. 22, n. 818, 2021.
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Embrapa Suínos e Aves (CNPSA) |
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Registro Completo
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Biblioteca(s): |
Embrapa Territorial. |
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Data corrente: |
17/08/2020 |
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Data da última atualização: |
30/05/2022 |
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Tipo da produção científica: |
Artigo em Periódico Indexado |
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Circulação/Nível: |
A - 1 |
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Autoria: |
TEIXEIRA, A. H. DE C.; LEIVAS, J. F.; GARCON, E. A. M.; TAKEMURA, C. M.; QUARTAROLI, C. F.; ALVAREZ, I. A. |
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Afiliação: |
ANTÔNIO HERIBERTO DE CASTRO TEIXEIRA, UNIVERSIDADE FEDERAL DO SERGIPE; JANICE FREITAS LEIVAS, CNPM; EDLENE APARECIDA MONTEIRO GARCON, CNPM; CELINA MAKI TAKEMURA, CNPM; CARLOS FERNANDO QUARTAROLI, CNPM; IVAN ANDRE ALVAREZ, CNPM. |
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Título: |
Modeling large-scale biometeorological indices to monitor agricultural-growing areas: applications in the fruit circuit region, São Paulo, Brazil. |
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Ano de publicação: |
2020 |
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Fonte/Imprenta: |
International Journal of Biometeorology, v. 64, n. 8, 2020. |
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ISBN: |
0020-7128 |
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DOI: |
10.1007/s00484-020-01996-9 |
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Idioma: |
Português |
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Conteúdo: |
This paper aimed to support the rational crop expansion in agricultural-growing regions. MODIS satellite images are used together with gridded weather data to model biometeorological parameters at the Fruit Circuit region, state of São Paulo, Southeast Brazil. This region has experienced some cases of drought, while arising rainfall water excess in some periods, demanding large-scale water and energy balance studies to subsidize water resource policies. The SAFER (Simple Algorithm for Evapotranspiration Retrieving) algorithm was applied together with the radiation-use efficiency (RUE) model for biometeorological index assessments. The highest latent heat fluxes (λE), above 8.0 MJ m−2 d−1 , at the end of the year, coincide with the progressive increases on both rainfall and global solar radiation (RG) levels, and drop to below 5.0 MJ m−2 d−1 in the middle of the year, during the driest conditions. The same tendencies along the year are verified for sensible heat fluxes (H), for which mean pixel values are above 3.5 MJ m−2 d−1 at the end of the year. On the one hand, the highest values for water productivity (WP), which is considered the ratio of actual evapotranspiration (ET) to biomass production (BIO), above 4.0 kg m−3 , are verified in April, period under increasing BIO and low ET rates. On the other hand, the lowest WP values (below 2.0 kg m−3) occur between August and October, when BIO is low, and ET is high. Although the area featuring good WP levels under high precipitation (P), with rainfalls generally above ET, supplementary irrigation may benefit agriculture in some periods of the year. The results of the large-scale modeling showed applicability of the models for monitoring water and vegetation dynamics over 16-day timescale and at a 250-m spatial resolution in areas experiencing climate and land-use changes by combining climate data and MODIS images. Application of these tools enables to indicate the best options for expanding the agriculture activities, being of great potential for rational natural resources management, in regions under environmental vulnerability conditions. MenosThis paper aimed to support the rational crop expansion in agricultural-growing regions. MODIS satellite images are used together with gridded weather data to model biometeorological parameters at the Fruit Circuit region, state of São Paulo, Southeast Brazil. This region has experienced some cases of drought, while arising rainfall water excess in some periods, demanding large-scale water and energy balance studies to subsidize water resource policies. The SAFER (Simple Algorithm for Evapotranspiration Retrieving) algorithm was applied together with the radiation-use efficiency (RUE) model for biometeorological index assessments. The highest latent heat fluxes (λE), above 8.0 MJ m−2 d−1 , at the end of the year, coincide with the progressive increases on both rainfall and global solar radiation (RG) levels, and drop to below 5.0 MJ m−2 d−1 in the middle of the year, during the driest conditions. The same tendencies along the year are verified for sensible heat fluxes (H), for which mean pixel values are above 3.5 MJ m−2 d−1 at the end of the year. On the one hand, the highest values for water productivity (WP), which is considered the ratio of actual evapotranspiration (ET) to biomass production (BIO), above 4.0 kg m−3 , are verified in April, period under increasing BIO and low ET rates. On the other hand, the lowest WP values (below 2.0 kg m−3) occur between August and October, when BIO is low, and ET is high. Although ... Mostrar Tudo |
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Palavras-Chave: |
Energy partition; Water productivity. |
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Thesaurus NAL: |
Biomass production; Geographic information systems; Remote sensing. |
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Categoria do assunto: |
-- |
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Marc: |
LEADER 03054naa a2200265 a 4500
001 2124372
005 2022-05-30
008 2020 bl uuuu u00u1 u #d
022 $a0020-7128
024 7 $a10.1007/s00484-020-01996-9$2DOI
100 1 $aTEIXEIRA, A. H. DE C.
245 $aModeling large-scale biometeorological indices to monitor agricultural-growing areas$bapplications in the fruit circuit region, São Paulo, Brazil.$h[electronic resource]
260 $c2020
520 $aThis paper aimed to support the rational crop expansion in agricultural-growing regions. MODIS satellite images are used together with gridded weather data to model biometeorological parameters at the Fruit Circuit region, state of São Paulo, Southeast Brazil. This region has experienced some cases of drought, while arising rainfall water excess in some periods, demanding large-scale water and energy balance studies to subsidize water resource policies. The SAFER (Simple Algorithm for Evapotranspiration Retrieving) algorithm was applied together with the radiation-use efficiency (RUE) model for biometeorological index assessments. The highest latent heat fluxes (λE), above 8.0 MJ m−2 d−1 , at the end of the year, coincide with the progressive increases on both rainfall and global solar radiation (RG) levels, and drop to below 5.0 MJ m−2 d−1 in the middle of the year, during the driest conditions. The same tendencies along the year are verified for sensible heat fluxes (H), for which mean pixel values are above 3.5 MJ m−2 d−1 at the end of the year. On the one hand, the highest values for water productivity (WP), which is considered the ratio of actual evapotranspiration (ET) to biomass production (BIO), above 4.0 kg m−3 , are verified in April, period under increasing BIO and low ET rates. On the other hand, the lowest WP values (below 2.0 kg m−3) occur between August and October, when BIO is low, and ET is high. Although the area featuring good WP levels under high precipitation (P), with rainfalls generally above ET, supplementary irrigation may benefit agriculture in some periods of the year. The results of the large-scale modeling showed applicability of the models for monitoring water and vegetation dynamics over 16-day timescale and at a 250-m spatial resolution in areas experiencing climate and land-use changes by combining climate data and MODIS images. Application of these tools enables to indicate the best options for expanding the agriculture activities, being of great potential for rational natural resources management, in regions under environmental vulnerability conditions.
650 $aBiomass production
650 $aGeographic information systems
650 $aRemote sensing
653 $aEnergy partition
653 $aWater productivity
700 1 $aLEIVAS, J. F.
700 1 $aGARCON, E. A. M.
700 1 $aTAKEMURA, C. M.
700 1 $aQUARTAROLI, C. F.
700 1 $aALVAREZ, I. A.
773 $tInternational Journal of Biometeorology$gv. 64, n. 8, 2020.
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