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Robin R. Gutell - One of the best experts on this subject based on the ideXlab platform.
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124 evidence for lateral transfer of a ie intron between fungal and red algal small subunit ribosomal rna genes
Journal of Phycology, 2003Co-Authors: Kirsten M. Müller, Jamie J. Cannone, Robert G. Sheath, D W Ellenor, Alison R Sherwood, Robin R. GutellAbstract:In a recent study of the North American biogeography of the red algae genus Hildenbrandia, the presence of group I introns were noted in the nuclear SSU rRNA gene of the marine species H. rubra (Hildenbrandiales). Group I introns in the nuclear encoded rRNAs have been previously reported in the Hildenbrandiales as well as the Bangiales. All reported introns within the red algae have been identified as belonging to the IC1 subclass and occur at two insertion sites in the nuclear small subunit rRNA (516 and 1506). However, an unclassified intron was discovered at position 989 in the nuclear SSU rRNA gene of a collection of H. rubra from British Columbia, Canada. We have determined that the intron is a member of the IE subclass and this is the first report of an IE intron and an intron in position 989 in the red algae. Phylogenetic analyses of the intron sequences reveal a close relationship between this group IE intron and similar ascomycete and basidiomycete fungal IE introns in the nuclear SSU rRNA genes at positions 989 and 1199. In addition, a common unique helix (structural signature) in the P13 domain of the Hildenbrandia intron and those of the fungi at the 989 and 1199 IE positions in the nuclear SSU rRNA gene also indicates a close relationship. Hence, this study provides evidence for a possible lateral transfer of the IE intron in position 989 between fungal and red algal nuclear SSU rRNA genes.
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a structural and phylogenetic analysis of the group ic1 introns in the order bangiales rhodophyta
Molecular Biology and Evolution, 2001Co-Authors: Kirsten M. Müller, Jamie J. Cannone, Robin R. Gutell, Robert G. SheathAbstract:Our previous study of the North American biogeography of Bangia revealed the presence of two introns inserted at positions 516 and 1506 in the nuclear-encoded SSU rRNA gene. We subsequently sequenced nuclear SSU rRNA in additional representatives of this genus and the sister genus Porphyra in order to examine the distribution, phylogeny, and structural characteristics of these group I introns. The lengths of these introns varied considerably, ranging from 467 to 997 nt for intron 516 and from 509 to 1,082 nt for intron 1506. The larger introns contained large insertions in the P2 domain of intron 516 and the P1 domain of intron 1506 that correspond to open reading frames (ORFs) with His-Cys box homing endonuclease motifs. These ORFs were found on the complementary strand of the 1506 intron in Porphyra fucicola and P. umbilicalis (HG), unlike the 516 intron in P. abbottae, P. kanakaensis, P. tenera (SK), Bangia fuscopurpurea (Helgoland), and B. fuscopurpurea (MA). Frameshifts were noted in the ORFs of the 516 introns in P. kanakaensis and B. fuscopurpurea (HL), and all ORFs terminated prematurely relative to the amino acid sequence for the homing endonuclease I-Ppo I. This raises the possibility that these sequences are pseudogenes. Phylogenies generated using sequences of both introns and the 18S rRNA gene were congruent, which indicated long-term immobility and vertical inheritance of the introns followed by subsequent loss in more derived lineages. The introns within the florideophyte species Hildenbrandia rubra (position 1506) were included to determine relationships with those in the Bangiales. The two sequences of intron 1506 analyzed in Hildenbrandia were positioned on a well-supported branch associated with members of the Bangiales, indicating possible common ancestry. Structural analysis of the intron sequences revealed a signature structural feature in the P5b domain of intron 516 that is unique to all Bangialean introns in this position and not seen in intron 1506 or other group IC1 introns.
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A structural and phylogenetic analysis of the group
2001Co-Authors: Kirsten M. Müller, Jamie J. Cannone, Robin R. Gutell, Robert G. SheathAbstract:Our previous study of the North American biogeography of Bangia revealed the presence of two introns inserted at positions 516 and 1506 in the nuclear-encoded SSU rRNA gene. We subsequently sequenced nuclear SSU rRNA in additional representatives of this genus and the sister genus Porphyra in order to examine the distribution, phylogeny, and structural characteristics of these group I introns. The lengths of these introns varied considerably, ranging from 467 to 997 nt for intron 516 and from 509 to 1,082 nt for intron 1506. The larger introns contained large insertions in the P2 domain of intron 516 and the P1 domain of intron 1506 that correspond to open reading frames (ORFs) with His-Cys box homing endonuclease motifs. These ORFs were found on the complementary strand of the 1506 intron in Porphyra fucicola and P. umbilicalis (HG), unlike the 516 intron in P. abbottae, P. kanakaensis, P. tenera (SK), Bangia fuscopurpurea (Helgoland), and B. fuscopurpurea (MA). Frameshifts were noted in the ORFs of the 516 introns in P. kanakaensis and B. fuscopurpurea (HL), and all ORFs terminated prematurely relative to the amino acid sequence for the homing endonuclease I-Ppo I. This raises the possibility that these sequences are pseudogenes. Phylogenies generated using sequences of both introns and the 18S rRNA gene were congruent, which indicated long-term immobility and vertical inheritance of the introns followed by subsequent loss in more derived lineages. The introns within the florideophyte species Hildenbrandia rubra (position 1506) were included to determine relationships with those in the Bangiales. The two sequences of intron 150
Kirsten M. Müller - One of the best experts on this subject based on the ideXlab platform.
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124 evidence for lateral transfer of a ie intron between fungal and red algal small subunit ribosomal rna genes
Journal of Phycology, 2003Co-Authors: Kirsten M. Müller, Jamie J. Cannone, Robert G. Sheath, D W Ellenor, Alison R Sherwood, Robin R. GutellAbstract:In a recent study of the North American biogeography of the red algae genus Hildenbrandia, the presence of group I introns were noted in the nuclear SSU rRNA gene of the marine species H. rubra (Hildenbrandiales). Group I introns in the nuclear encoded rRNAs have been previously reported in the Hildenbrandiales as well as the Bangiales. All reported introns within the red algae have been identified as belonging to the IC1 subclass and occur at two insertion sites in the nuclear small subunit rRNA (516 and 1506). However, an unclassified intron was discovered at position 989 in the nuclear SSU rRNA gene of a collection of H. rubra from British Columbia, Canada. We have determined that the intron is a member of the IE subclass and this is the first report of an IE intron and an intron in position 989 in the red algae. Phylogenetic analyses of the intron sequences reveal a close relationship between this group IE intron and similar ascomycete and basidiomycete fungal IE introns in the nuclear SSU rRNA genes at positions 989 and 1199. In addition, a common unique helix (structural signature) in the P13 domain of the Hildenbrandia intron and those of the fungi at the 989 and 1199 IE positions in the nuclear SSU rRNA gene also indicates a close relationship. Hence, this study provides evidence for a possible lateral transfer of the IE intron in position 989 between fungal and red algal nuclear SSU rRNA genes.
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a structural and phylogenetic analysis of the group ic1 introns in the order bangiales rhodophyta
Molecular Biology and Evolution, 2001Co-Authors: Kirsten M. Müller, Jamie J. Cannone, Robin R. Gutell, Robert G. SheathAbstract:Our previous study of the North American biogeography of Bangia revealed the presence of two introns inserted at positions 516 and 1506 in the nuclear-encoded SSU rRNA gene. We subsequently sequenced nuclear SSU rRNA in additional representatives of this genus and the sister genus Porphyra in order to examine the distribution, phylogeny, and structural characteristics of these group I introns. The lengths of these introns varied considerably, ranging from 467 to 997 nt for intron 516 and from 509 to 1,082 nt for intron 1506. The larger introns contained large insertions in the P2 domain of intron 516 and the P1 domain of intron 1506 that correspond to open reading frames (ORFs) with His-Cys box homing endonuclease motifs. These ORFs were found on the complementary strand of the 1506 intron in Porphyra fucicola and P. umbilicalis (HG), unlike the 516 intron in P. abbottae, P. kanakaensis, P. tenera (SK), Bangia fuscopurpurea (Helgoland), and B. fuscopurpurea (MA). Frameshifts were noted in the ORFs of the 516 introns in P. kanakaensis and B. fuscopurpurea (HL), and all ORFs terminated prematurely relative to the amino acid sequence for the homing endonuclease I-Ppo I. This raises the possibility that these sequences are pseudogenes. Phylogenies generated using sequences of both introns and the 18S rRNA gene were congruent, which indicated long-term immobility and vertical inheritance of the introns followed by subsequent loss in more derived lineages. The introns within the florideophyte species Hildenbrandia rubra (position 1506) were included to determine relationships with those in the Bangiales. The two sequences of intron 1506 analyzed in Hildenbrandia were positioned on a well-supported branch associated with members of the Bangiales, indicating possible common ancestry. Structural analysis of the intron sequences revealed a signature structural feature in the P5b domain of intron 516 that is unique to all Bangialean introns in this position and not seen in intron 1506 or other group IC1 introns.
Peres, Cleto Kaveski - One of the best experts on this subject based on the ideXlab platform.
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Rhodophyta de ambientes lóticos de Unidades de Conservação da região Sul do Brasil
Instituto Virtual da Biodiversidade | BIOTA - FAPESP, 2011Co-Authors: Branco,ciro Cesar Zanini, Peres, Cleto Kaveski, Riolfi,thais Antunes, Necchi Júnior,orlandoAbstract:Espécies de Rhodophyta de 10 Unidades de Conservação da região Sul do Brasil foram investigadas. As amostragens foram conduzidas em 105 segmentos de riachos consistindo em transeções de 10 m de comprimento. O levantamento florístico resultou em 80 populações representando três gêneros, Batrachospermum, Kumanoa e Hildenbrandia, além do estágios 'Chantransia'. Batrachospermum foi representado por cinco espécies (B. arcuatum Kylin, B. atrum (Hudson) Harvey, B. helminthosum Bory, B. keratophytum Bory, B. puiggarianum Grunow in Wittrock & Nordstedt). O gênero Kumanoa foi representado por K. abilii (Reis) Necchi Júnior & Vis e K. ambigua (Montagne) Entwisle et al., enquanto Hildenbrandia exclusivamente por H. angolensis W. West & G.S. West. Nossos resultados confirmam Batachospermum como o gênero melhor representado, em termos de número de espécies, entre as Rhdophyta de água doce. Batrachospermum arcuatum foi registrado pela primeira vez na região Sul do Brasil, ampliando assim, o limite austral de sua distribuição
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Rhodophyta de ambientes lóticos de unidades de conservação da região sul do Brasil
Revista Biota Neotropica, 2011Co-Authors: Zanini Branco, Ciro Cesar, Riolfii, Thais Antunes, Peres, Cleto Kaveski, Necchi Junior OrlandoAbstract:Species of Rhodophyta from 10 Conservation Units from the south region of Brazil were surveyed. The samplings were carried out in 105 stream reaches, consisting of 10 m length transects. The floristic survey involved 80 populations, representing three genera, Batrachospermum, Kumanoa and Hildenbrandia plus the 'Chantransia' stages. Batrachospermum was represented by five species (B. arcuatum Kylin, B. atrum (Hudson) Harvey, B. helminthosum Bory, B. keratophytum Bory and B. puiggarianum Grunow in Wittrock & Nordstedt). The genus Kumanoa was represented by K. abilii (Reis) Necchi Junior & Vis and K. ambigua (Montagne) Entwisle et al., while Hildenbrandia only by H. angolensis W.West & G.S.West. Our results confirm Batachospermum as the best represented genus, in terms of species number, among freshwater Rhdophyta. B. arcuatum was a new record for the south region of Brazil, thus extending its austral distribution range.Espécies de Rhodophyta de 10 Unidades de Conservação da região Sul do Brasil foram investigadas. As amostragens foram conduzidas em 105 segmentos de riachos consistindo em transeções de 10 m de comprimento. O levantamento florístico resultou em 80 populações representando três gêneros, Batrachospermum, Kumanoa e Hildenbrandia, além do estágios ‘Chantransia’. Batrachospermum foi representado por cinco espécies (B. arcuatum Kylin, B. atrum (Hudson) Harvey, B. helminthosum Bory, B. keratophytum Bory, B. puiggarianum Grunow in Wittrock & Nordstedt). O gênero Kumanoa foi representado por K. abilii (Reis) Necchi Júnior & Vis e K. ambigua (Montagne) Entwisle et al., enquanto Hildenbrandia exclusivamente por H. angolensis W. West & G.S. West. Nossos resultados confirmam Batachospermum como o gênero melhor representado, em termos de número de espécies, entre as Rhdophyta de água doce. Batrachospermum arcuatum foi registrado pela primeira vez na região Sul do Brasil, ampliando assim, o limite austral de sua distribuição
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Rhodophyta from streams of conservation units in southern Brazil
Revista Biota Neotropica, 2011Co-Authors: Zanini Branco, Ciro Cesar [unesp], Peres, Cleto Kaveski, Riolfii, Thais Antunes [unesp], Necchi Junior, Orlando [unesp]Abstract:Species of Rhodophyta from 10 Conservation Units from the south region of Brazil were surveyed. The samplings were carried out in 105 stream reaches, consisting of 10 m length transects. The floristic survey involved 80 populations, representing three genera, Batrachospermum, Kumanoa and Hildenbrandia plus the 'Chantransia' stages. Batrachospermum was represented by five species (B. arcuatum Kylin, B. atrum (Hudson) Harvey, B. helminthosum Bory, B. keratophytum Bory and B. puiggarianum Grunow in Wittrock & Nordstedt). The genus Kumanoa was represented by K. abilii (Reis) Necchi Junior & Vis and K. ambigua (Montagne) Entwisle et al., while Hildenbrandia only by H. angolensis W.West & G.S.West. Our results confirm Batachospermum as the best represented genus, in terms of species number, among freshwater Rhdophyta. B. arcuatum was a new record for the south region of Brazil, thus extending its austral distribution range.Espécies de Rhodophyta de 10 Unidades de Conservação da região Sul do Brasil foram investigadas. As amostragens foram conduzidas em 105 segmentos de riachos consistindo em transeções de 10 m de comprimento. O levantamento florístico resultou em 80 populações representando três gêneros, Batrachospermum, Kumanoa e Hildenbrandia, além do estágios ‘Chantransia’. Batrachospermum foi representado por cinco espécies (B. arcuatum Kylin, B. atrum (Hudson) Harvey, B. helminthosum Bory, B. keratophytum Bory, B. puiggarianum Grunow in Wittrock & Nordstedt). O gênero Kumanoa foi representado por K. abilii (Reis) Necchi Júnior & Vis e K. ambigua (Montagne) Entwisle et al., enquanto Hildenbrandia exclusivamente por H. angolensis W. West & G.S. West. Nossos resultados confirmam Batachospermum como o gênero melhor representado, em termos de número de espécies, entre as Rhdophyta de água doce. Batrachospermum arcuatum foi registrado pela primeira vez na região Sul do Brasil, ampliando assim, o limite austral de sua distribuição
Oliveira, Régis De Campos - One of the best experts on this subject based on the ideXlab platform.
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Distribuição ecológica das comunidades de macroalgas de ambientes lóticos em duas unidades de conservação abrangendo os biomas da Floresta Estacional Semidecidual e Campos no estado do Paraná
Universidade Estadual Paulista (UNESP), 2011Co-Authors: Oliveira, Régis De CamposAbstract:Estudos anteriores sugerem que, aparentemente, existem padrões específicos para descrever a composição e a estrutura das comunidades de macroalgas em ambientes lóticos em função das características do bioma ao qual estão inseridos. Neste contexto, a presente dissertação objetivou avaliar, de forma comparativa, a composição, a estrutura das comunidades e a distribuição espacial das comunidades de macroalgas lóticas de duas unidades de conservação (UCs) com biomas distintos: Campos no Parque Estadual de Vila Velha (PVV) e Floresta Estacional Semidecidual no Parque Nacional do Iguaçu (PNI). Em adição, pretendeu-se comparar as comunidades de macroalgas nas quatro estações do ano, a fim de se verificar a possível existência de padrões temporais. As amostragens foram realizadas em 5 segmentos de riacho de 10 m de extensão, em cada UC, através da técnica da transeção, onde as variáveis abióticas (temperatura, oxigênio, pH, condutividade, turbidez, profundidade e velocidade da correnteza) foram mensuradas, assim como a presença e a abundância de cada espécie de macroalga. Estes parâmetros bióticos foram avaliados através da análise visual do leito do rio/riacho. As amostragens foram feitas uma vez a cada estação do ano. O estudo taxonômico registrou 37 macroalgas no total, sendo 16 táxons de ocorrência exclusiva no PVV, 18 táxons de ocorrência exclusiva no PNI e apenas 3 táxons com ocorrência em ambos os parques (Phormidium retzii, Hildenbrandia angolensis e Batrachospermum puiggarianum). O táxon com maior ocorrência no PVV foi o Zygogonium sp. (9 ocorrências), e no PNI o estágio “Chantransia” pygmaea foi o que ocorreu em maior número de pontos amostrados (15). Em relação aos tipos morfológicos, foram encontrados: filamentos livres (24%), filamentos gelatinosos (22%)...Previous studies suggest that, apparently, there are specific standards to describe the structure and composition of macroalgae communities in lotic environments depending on the characteristics of the biome to which they belong. In this context, the present study aimed to evaluate, comparatively, the floristic composition, community structure and spatial distribution of lotic macroalgae communities from protected areas (PAs) with two distinct biomes, Grassland on Vila Velha State Park (VVP) and Semideciduous Seasonal Forest on the Iguazu National Park (INP). In addition, we intended to compare the macroalgal communities in the four seasons, to verify the possible existence of temporal patterns. The sampling sites were carried out from five segments of stream, 10 m length, in each PA, by means of the transect technique, where the environmental variables (temperature, oxygen, pH, conductivity, turbidity, depth and current velocity) were measured, as well the presence and abundance of each species of seaweed. These biotic parameters were evaluated using visual analysis of stream/river. The samplings were taken once every season. The taxonomic study recorded 37 macroalgae in total, with 16 taxa occurring exclusively in VVP, 18 taxa occurring exclusively in INP and only three taxa occurring in both parks (Phormidium retzii, Hildenbrand angolensis and Batrachospermum puiggarianum). The taxon with the highest frequency of occurrence in the VVP was Zygogonium sp. (9 sites), whereas in INP Chantransia pygmaea is what happened to a greater number of sampled sites (15). Respecting the morphological types were found: free filaments (24%), gelatinous filaments (22%), mats (19%), gelatinous colonies... (Complete abstract click electronic access below)Coordenação de Aperfeiçoamento de Pessoal de Nível Superior (CAPES
Oliveira, Régis De Campos [unesp] - One of the best experts on this subject based on the ideXlab platform.
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Distribuição ecológica das comunidades de macroalgas de ambientes lóticos em duas unidades de conservação abrangendo os biomas da Floresta Estacional Semidecidual e Campos no estado do Paraná
Universidade Estadual Paulista (UNESP), 2011Co-Authors: Oliveira, Régis De Campos [unesp]Abstract:Estudos anteriores sugerem que, aparentemente, existem padrões específicos para descrever a composição e a estrutura das comunidades de macroalgas em ambientes lóticos em função das características do bioma ao qual estão inseridos. Neste contexto, a presente dissertação objetivou avaliar, de forma comparativa, a composição, a estrutura das comunidades e a distribuição espacial das comunidades de macroalgas lóticas de duas unidades de conservação (UCs) com biomas distintos: Campos no Parque Estadual de Vila Velha (PVV) e Floresta Estacional Semidecidual no Parque Nacional do Iguaçu (PNI). Em adição, pretendeu-se comparar as comunidades de macroalgas nas quatro estações do ano, a fim de se verificar a possível existência de padrões temporais. As amostragens foram realizadas em 5 segmentos de riacho de 10 m de extensão, em cada UC, através da técnica da transeção, onde as variáveis abióticas (temperatura, oxigênio, pH, condutividade, turbidez, profundidade e velocidade da correnteza) foram mensuradas, assim como a presença e a abundância de cada espécie de macroalga. Estes parâmetros bióticos foram avaliados através da análise visual do leito do rio/riacho. As amostragens foram feitas uma vez a cada estação do ano. O estudo taxonômico registrou 37 macroalgas no total, sendo 16 táxons de ocorrência exclusiva no PVV, 18 táxons de ocorrência exclusiva no PNI e apenas 3 táxons com ocorrência em ambos os parques (Phormidium retzii, Hildenbrandia angolensis e Batrachospermum puiggarianum). O táxon com maior ocorrência no PVV foi o Zygogonium sp. (9 ocorrências), e no PNI o estágio “Chantransia” pygmaea foi o que ocorreu em maior número de pontos amostrados (15). Em relação aos tipos morfológicos, foram encontrados: filamentos livres (24%), filamentos gelatinosos (22%)...Previous studies suggest that, apparently, there are specific standards to describe the structure and composition of macroalgae communities in lotic environments depending on the characteristics of the biome to which they belong. In this context, the present study aimed to evaluate, comparatively, the floristic composition, community structure and spatial distribution of lotic macroalgae communities from protected areas (PAs) with two distinct biomes, Grassland on Vila Velha State Park (VVP) and Semideciduous Seasonal Forest on the Iguazu National Park (INP). In addition, we intended to compare the macroalgal communities in the four seasons, to verify the possible existence of temporal patterns. The sampling sites were carried out from five segments of stream, 10 m length, in each PA, by means of the transect technique, where the environmental variables (temperature, oxygen, pH, conductivity, turbidity, depth and current velocity) were measured, as well the presence and abundance of each species of seaweed. These biotic parameters were evaluated using visual analysis of stream/river. The samplings were taken once every season. The taxonomic study recorded 37 macroalgae in total, with 16 taxa occurring exclusively in VVP, 18 taxa occurring exclusively in INP and only three taxa occurring in both parks (Phormidium retzii, Hildenbrand angolensis and Batrachospermum puiggarianum). The taxon with the highest frequency of occurrence in the VVP was Zygogonium sp. (9 sites), whereas in INP Chantransia pygmaea is what happened to a greater number of sampled sites (15). Respecting the morphological types were found: free filaments (24%), gelatinous filaments (22%), mats (19%), gelatinous colonies... (Complete abstract click electronic access below