Causes and consequences of DNA content variation in Zea / Causas y consecuencias de la variación del contenido de ADN en Zea

ABSTRACT Cytogenetic evidence indicates that Zea, which comprises maize (Z. mays ssp. mays) and its wild relatives, is an allopolyploid genus. Our research group has carried out numerous cytogenetic studies on Zea species, mainly focused on native Argentinian and Bolivian maize landraces. We found a wide inter- and intraspecific genome size variation in the genus, with mean 2C-values ranging between 4.20 and 11.36 pg. For the maize landraces studied here, it varied between 4.20 and 6.75 pg. The objectives of this work are to analyze the causes of genome size variation and to discuss their adaptive value in Zea. This variation is mainly attributed to differences in the heterochromatin located in the knobs and to the amount of interspersed DNA from retrotransposons. Polymorphisms in presence or absence of B-chromosomes (Bs) and the population frequency of Bs are also a source of genome size variation, with doses ranging between one and eight in the landraces analyzed here. Correlation analysis revealed that the percentage of heterochromatin is positively correlated with genome size. In addition, populations cultivated at higher altitudes, which are known to be precocious, have smaller genome sizes than do those growing at lower altitudes. This information, together with the positive correlation observed between the length of the vegetative cycle and the percentage of heterochromatin, led us to propose that it has an adaptive role. On the other hand, the negative relationship found between Bs and heterochromatic knobs allowed us to propose the existence of an intragenomic conflict between these elements. We hypothesize that an optimal nucleotype may have resulted from such intranuclear conflict, where genome adjustments led to a suitable length of the vegetative cycle for maize landraces growing across altitudinal clines.

RESUMEN La evidencia citogenética indica que el género Zea, el maíz (Z. mays ssp. mays) y sus parientes silvestres, posee un origen alopoliploide. Nuestro grupo de investigación ha realizado numerosos estudios en especies de Zea, principalmente en maíces nativos de Argentina y Bolivia. En este género, hallamos una amplia variación inter e intraespecífica en el tamaño del genoma, con valores 2C medios que oscilan entre 4,20 y 11,36 pg. El valor 2C medio de los maíces nativos estudiados varió entre 4,20 y 6,75 pg. Los objetivos de este trabajo son analizar las causas de la variación del tamaño del genoma en Zea y discutir su valor adaptativo. Esta variación se atribuye principalmente a las diferencias en la heterocromatina de los knobs y en la cantidad de ADN intercalado de los retrotransposones. Otras fuentes de variación son los polimorfismos para presencia/ausencia de cromosomas B (Bs) y para la frecuencia poblacional de Bs en las razas analizadas, con dosis que oscilan entre uno y ocho Bs. El porcentaje de heterocromatina se correlaciona positivamente con el tamaño del genoma. Las poblaciones cultivadas en altitudes altas, que son precoces, tienen tamaños de genoma más pequeños que las que crecen en bajas altitudes. Esta información, junto con la correlación positiva observada entre la duración del ciclo vegetativo y el porcentaje de heterocromatina, nos llevó a proponer el rol adaptativo de la heterocromatina. Por otro lado, la relación negativa encontrada entre Bs y knobs heterocromáticos nos permitió proponer la existencia de un conflicto intragenómico entre estos elementos. Hipotetizamos que de este conflicto intranuclear habría resultado el nucleotipo óptimo, donde ajustes genómicos condujeron a una duración adecuada del ciclo vegetativo en las razas de maíz que crecen a lo largo de clines altitudinales.

De novo transcriptome sequencing and gene expression profiling with/without B-chromosome plants of Lilium amabile

Supernumerary B chromosomes were found in Lilium amabile (2n = 2x = 24), an endemic Korean lily that grows in the wild throughout the Korean Peninsula. The extra B chromosomes do not affect the host-plant morphology; therefore, whole transcriptome analysis was performed in 0B and 1B plants to identify differentially expressed genes. A total of 154,810 transcripts were obtained from over 10 Gbp data by de novo assembly. By mapping the raw reads to the de novo transcripts, we identified 7,852 differentially expressed genes (log₂FC > |10|), in which 4,059 and 3,794 were up-and down-regulated, respectively, in 1B plants compared to 0B plants. Functional enrichment analysis revealed that various differentially expressed genes were involved in cellular processes including the cell cycle, chromosome breakage and repair, and microtubule formation; all of which may be related to the occurrence and maintenance of B chromosomes. Our data provide insight into transcriptomic changes and evolution of plant B chromosomes and deliver an informative database for future study of B chromosome transcriptomes in the Korean lily.

Karyotypic diversity among three species of the genus Astyanax (Characiformes: Characidae) / Diversidade Cariotípica entre três espécies do gênero Astyanax (Characiformes, Characidae)

Abstract The group Incertae sedis within the Characidae family currently includes 88 genera, previously included in the subfamily Tetragonopterinae. Among them is the genus Astyanax comprising a group of species with similar morphology and widely distributed in the Neotropics. Thus, the present study aimed to analyze the karyotype diversity in Astyanax species from different watersheds by conventional Giemsa staining, C-banding and fluorescence in situ hybridization (FISH rDNA 18S) probe.specimens of Astyanax aff. paranae belonging to the “scabripinnis complex”, Astyanax asunsionensis and Astyanax aff. bimaculatus were analyzed”. Two sympatric karyomorphs were observed in Astyanax.aff paranae, one of them having2n=48andthe other one with 2n=50 chromosomes. Other population of this same species also presented 2n=50 chromosomes, but differing in the karyotype formula and with macro supernumerary chromosome found in 100% of the cells in about 80%of females analyzed. Two population of A. asuncionensis and one population of Astyanax. aff. bimaculatus, also showed a diploid number of 50 chromosomes, but also differing in their karyotype formulas. Therefore, A. asuncionensis was also characterized by intraspecific chromosome diversity. The C-banding analysis was able to demonstrate a distinctable to demonstrate a distinct pattern of heterochromatin differing A. asuncionensis from Astyanax aff. paranae and Astyanax aff. bimaculatus. The supernumerary chromosome of Astyanax aff. paranae proved completely heterochromatic. Only Astyanax.aff. bimaculatus multiple showed multiple sites of nucleolar organizing regions. The other species were characterized by having a simple system of NOR. These data contributes to the know ledge of the existing biodiversity in our fish fauna, here highlighted by the inter- and intraspecific chromosomal diversity in the genus Astyanax.

Resumo O grupo Incertae sedis, dentro da família Characidae inclui atualmente 88 gêneros, anteriormente incluídos na subfamília Tetragonopterinae. Dentre eles encontra-se o gênero Astyanax que compreende um grupo de espécies com morfologia similar e com ampla distribuição na região Neotropical. Assim, o presente estudo teve como objetivo analisar a diversidade cariotípica em espécies de Astyanax de diferentes bacias hidrográficas, através da coloração convencional com Giemsa, bandeamento C e hibridização fluorescente in situ (FISH com rDNA 18S). Exemplares de Astyanax aff. paranae, pertencentes ao “complexo scabripinnis”; Astyanax asunsionensise Astyanax aff. bimaculatus foram analisados. Dois cariomorfos foram observados em A. aff. paranae, um deles com 2n=48 cromossomos e outro com 2n=50 cromossomos. Outra população apresentou 2n=50 cromossomos, ambas diferindo na fórmula cariotípica e um cromossomo supranumerário encontrado em 100% das células, em aproximadamente 80% das fêmeas analisadas. Populações de A.asunsionensis e uma população de Astyanax aff. Bimaculatus também mostraram número diplóide de 50 cromossomos, mas diferindo em suas fórmulas cariotípicas. Portanto, A. asuncionensis foi também caracterizado por uma diversidade cariotípica intraespecífica. As análises de bandeamento C foi capaz de demonstrar um padrão distinto de heterocromatina, diferindo A. asuncionensis de A.aff. paranae e A. aff. bimaculatus. O cromossomo supranumerário de Astyanax aff. paranae mostrou-se completamente heterocromático. Apenas Astyanax aff. bimaculatus mostrou múltiplos sítios de regiões organizadoras de nucléolo(NORs). As outras espécies foram caraterizadas por apresentar um sistema simples de NOR. Estes dados contribuem para o conhecimento da existência de biodiversidade em nossa fauna de peixes, aqui em destaque pela diversidade cromossômica inter e intraespecífica no gênero Astyanax.

Occurrence of B chromosomes in Tetragonisca Latreille, 1811 (Hymenoptera, Apidae, Meliponini): a new contribution to the cytotaxonomy of the genus

Tetragonisca angustula and Tetragonisca fiebrigi have recently been listed as valid species. This study aimed to cytogenetically investigate both species, emphasizing the new registry of B chromosomes in the tribe Meliponini. We analyzed colonies of T. angustula and T. fiebrigi collected at Tangará da Serra, Mato Grosso, Brazil, through conventional Giemsa staining, C-banding, and base-specific fluorochrome staining (CMA3/DAPI). T. angustula showed 2n = 34 chromosomes in females and n = 17 in males, with karyotype formula 2K = 34A M. T. fiebrigi showed numeric variation, with chromosome number varying from 2n = 34 to 2n = 36 in females and from n = 17 to n=18in males, with karyotype formula 2K = 32A M+2A Mc and 2K = 32A M+2A Mc + 1 or 2 B-chromosomes. The B chromosomes are heterochromatic. In T. fiebrigi, the CMA3/DAPI staining revealed four chromosomes with a CMA3 positive band. All individuals from the same colony showed the same number of B chromosomes. T. angustula and T. fiebrigi showed karyotype divergence, principally due to the presence of B chromosomes, which are found only in T. fiebrigi. Our data corroborate the status of valid species for both T. angustula and T. fiebrigi, as recently proposed.

Interspecific chromosomal divergences in the genus Characidium (Teleostei: Characiformes: Crenuchidae)

Karyotypes of seven fish species of the genus Characidium, three of them studied for the first time, were characterized using conventional cytogenetic techniques (Giemsa staining, Ag-NOR, and C-banding). All species presented a diploid number of 2n=50, with only metacentric and submetacentric chromosomes, as observed in all Characidium species studied. In two species cells with one to three B chromosomes were observed. All species analyzed have a single NOR-bearing chromosome pair with morphological differences among them. Characidium cf. zebra shows heterochromatic blocks restricted to the pericentromeric regions of all chromosomes denoting the absence of a sex chromosome system. On the other hand, the species Characidium lanei, C. pterostictum, C. lauroi, C. oiticicai, C. schubarti, and Characidium sp., besides presenting pericentromeric heterochromatic blocks, exhibited large interstitial and/or terminal heterochromatic blocks, and a ZZ/ZW sex chromosome system. The constitutive heterochromatin seems to play a relevant role in the chromosome differentiation process of the studied species, mainly in relation to the sex chromosomes. The geographical isolation of the rivers in which the species were sampled, associated with their way of life restricted to headwaters environments, may have favored the process of fixation of different karyotypes found in each of the analyzed species.

Os cariótipos de sete espécies de peixes do gênero Characidium, três estudadas pela primeira vez, foram caracterizados com o uso das técnicas citogenéticas convencionais (Giemsa, Ag-RONs e bandamento-C). Todas as espécies apresentaram número diplóide de 2n=50 cromossomos, com predominância de cromossomos dos tipos meta e submetacêntricos. Nesse estudo foi também observada a presença de até três cromossomos B em células de duas espécies, C. oiticicai e C. pterostictum. O bandamento C e o tratamento com nitrato de prata revelaram significativas diferenças nos cariótipos das espécies analisadas. A espécie Characidium cf. zebra apresenta heterocromatina restrita às regiões pericentroméricas dos cromossomos e ausência de heteromorfismos cromossômicos relacionados à diferenciação sexual, enquanto as espécies Characidium lanei, C. pterostictum, lauroi, C. oiticicai, C. schubarti e Characidium sp., evidenciaram, além de blocos pericentroméricos também observados em Characidium cf. zebra, grandes blocos heterocromáticos intersticiais e/ou terminais e sistema cromossômico de diferenciação sexual do tipo ZZ-ZW. A heterocromatina constitutiva parece exercer papel relevante no processo de diferenciação cromossômica destas espécies, principalmente em relação à diferenciação de cromossomos sexuais. O isolamento geográfico dos rios em que essas espécies foram amostradas, bem como o seu modo de vida restrito às regiões de cabeceira, podem ter favorecido o processo de diferenciação cromossômica e a fixação dos cariótipos particulares encontrados em cada uma das espécies analisadas.

Los cromosomas mitóticos y meióticos del pez tropical Petenia splendida (Cichlidae)

The mitotic and meiotic chromosomes of the tropical fish Petenia splendida (Cichlidae). The karyotype of bay snook, Petenia splendida, is described based on mitotic and meiotic stages of sixty larvae and twelve juveniles from Tabasco, Mexico. Standard cytological procedures with minor modifications were followed to obtain mitotic and meiotic chromosome spreads. One hundred chromosome slides were analyzed and 290 chromosome spreads were counted. High-quality spreads in mitosis and meiosis were used for karyotype analysis. Mitotic chromosome spreads showed 76.7 % of such cells with 2n=48 chromosomes, while meiotic spreads revealed 55.2 % with 24 chromosomes in haploid stage. Photographic documentation of eight highquality pictures showed that the karyotype consists of three pairs of bi-armed metacentric-submetacentric chromosomes (msm) and 21 pairs with uni-armed subtelocentric-acrocentric chromosomes (sta), with a fundamental number (FN) of 54 arms. Karyotype chromosomes were verified by analysis of haploid and diploid metaphases at meiotic stage I. Abundant chromosome spreads were observed more frequently on slides from larvae. No evidence of heteromorphism to discriminate sexual chromosomes was detected. There were "dot-like" chromatic bodies in both sexes and they were classified as "B" chromosomes. The karyotype of P. splendida is type "A", i.e. primitive in the Cichlid family, similar to other species of Cichlasoma. The occurrence of supernumerary chromosomes is still unknown: studies on the effects of pollution and hybridization might be important to understand that phenomenon. Rev. Biol. Trop. 56 (2): 895-907. Epub 2008 June 30.

Para describir los cromosomas del cariotipo en mitosis y meiosis de la mojarra tenguayaca P. splendida, se procesaron 60 larvas y doce jóvenes (seis hembras y seis machos) procedentes de Tabasco, México. Se emplearon los procedimientos citológicos clásicos para peces pequeños y grandes, con algunas modificaciones que permitieron obtener campos cromosómicos en meiosis y mitosis. Analizamos al microscopio 100 laminillas, contando 290 dispersiones cromosómicas. En mitosis, 76.7 % de los conteos dieron número modal diploide de 2N=48 cromosomas, mientras en meiosis el 55.2 % mostró 24 cromosomas en condición haploide. Se analizaron ocho de las mejores fotografías para establecer el cariotipo y se identificaron tres pares de cromosomas birrámeos metacéntricos-submetacéntricos (msm) y 21 pares de cromosomas monorrámeos subtelocéntricos-acrocéntricos (sta) con número fundamental (N.F) de 54 brazos. Se corroboró el cariotipo mediante el análisis de campos cromosómicos en estadio haploide y diploide de la meiosis I. Las dispersiones cromosómicas tuvieron un número mayor en larvas que en jóvenes. No hubo diferencias heteromórficas para distinguir cromosomas sexuales. Sin embargo, se observó la presencia de cuerpos cromáticos en forma de puntos, como una característica propia de los microcromosomas "B". Para esta familia, el cariotipo de P. splendida es primitivo o tipo "A"; y es estrechamente parecido al del género Cichlasoma. El origen de los cromosomas supernumerarios es un fenómeno aun desconocido en los cíclidos por lo que faltan estudios relacionados con el daño causado por la contaminación y la hibridación.

Identification and description of distinct B chromosomes in Cyphocharax modestus (Characiformes, Curimatidae)

Cytogenetic analyses were performed in Cyphocharax modestus, collected at Paranapanema River and Tietê River (São Paulo State, Brazil). A karyotype with 2n = 54 chromosomes was observed in the animals from both Brazilian freshwater river systems. One to four B chromosomes were also detected in individuals from the Paranapanema River, which represents the probable first report of more than a single supernumerary element in a species of the Curimatidae group. C-banding revealed centromeric and telomeric heterochromatin blocks in several chromosomes of the normal karyotype complement of C. modestus. Moreover, while some B chromosomes were characterized by the complete absence of C-bands, others were totally heterochromatic. Although there was a prevalence of B chromosomes in males of C. modestus, at least one supernumerary element was found in males and/or females of several other populations of the species, which suggests that the presence of these chromosomes seems to represent a general trait of C. modestus. A possible origin of the described B chromosomes may be related to the occurrence of a chromosome non-disjunction followed by the loss of euchromatic segments, an event that should have occurred in chromosomes that present conspicuous centromeric heterochromatic blocks and even in chromosomes that lack C-bands in this region, resulting in small supernumerary elements.

First report of a B chromosome in a natural population of Astyanax altiparanae (Characiformes, Characidae)

Several species of the genus Astyanax have already been genetically studied, and B-chromosomes have been considered to be an interesting feature in some species of this group. In the present paper we report, for the first time, the occurrence of a B microchromosome in a natural population of A. altiparanae. This additional genomic element was identified as an acrocentric chromosome, similar in size to the smallest chromosomal pairs of the standard karyotype. Analysis of the constitutive heterochromatin pattern by C-banding evidenced heterochromatic blocks located on centromeric, pericentromeric, and interstitial regions of some chromosomes, and also positive marks in a subtelocentric chromosomal pair that presented the short arms entirely heterochromatic. The application of this methodology also revealed a heterochromatic pattern in the extra chromosome, a typical feature of supernumerary chromosomes.

Cytogenetic characterization of Melipona rufiventris Lepeletier 1836 and Melipona mondury Smith 1863 (Hymenoptera, Apidae) by C banding and fluorochromes staining

The stingless bees Melipona rufiventris and M. mondury were analyzed cytogenetically by conventional staining with Giemsa, C-banding and sequential staining with the fluorochromes CMA3/DA/DAPI. Both species presented 2n = 18 and n = 9, except for one colony of M. rufiventris, in which some individuals had 2n = 19 due to the presence of a B chromosome. After Giemsa staining and C-banding the chromosomes appeared very condensed and presented a high heterochromatic content, making it difficult to localize the centromere and therefore to visualize the chromosomes morphology. The constitutive heterochromatin was located in interstitial chromosome regions covering most of the chromosomes extension and consisted mainly of AT, as shown by DAPI staining. The euchromatin was restricted to the chromosome extremities and was GC-rich, as evidenced by CMA3 staining. The B chromosome was CMA3-negative and DAPI-positive, a heterochromatic constitution similar to that of the A genome chromosomes.