Similarity of maize and sorghum genomes as revealed by maize RFLP probes

Binelli, Giorgio; Gianfranceschi, L.; Pè, Mario Enrico; Taramino, Graziana; Busso, Carlos S.; Stenhouse, J W; Ottaviano, E.

doi:10.1007/bf00223975

Cited by 80 publications

(30 citation statements)

References 29 publications

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“…Similar to others in the Poaceae family, early linkage studies established orthology in large segments of the maize and sorghum genomes, although numerous segmental duplications and deletions were noted (Hulbert et al, 1990;Binelli et al, 1992;Chen et al, 1997;Helentjaris et al, 1988;Peng et al, 1999). Genetic markers shared between rice and sorghum have been directly compared (Ventelon et al, 2001), and similar conclusions have been reached.…”

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confidence: 53%

Targeted Analysis of Orthologous Phytochrome A Regions of the Sorghum, Maize, and Rice Genomes using Comparative Gene-Island Sequencing

et al. 2002

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A "gene-island" sequencing strategy has been developed that expedites the targeted acquisition of orthologous gene sequences from related species for comparative genome analysis. A 152-kb bacterial artificial chromosome (BAC) clone from sorghum (Sorghum bicolor) encoding phytochrome A (PHYA) was fully sequenced, revealing 16 open reading frames with a gene density similar to many regions of the rice (Oryza sativa) genome. The sequences of genes in the orthologous region of the maize (Zea mays) and rice genomes were obtained using the gene-island sequencing method. BAC clones containing the orthologous maize and rice PHYA genes were identified, sheared, subcloned, and probed with the sorghum PHYAcontaining BAC DNA. Sequence analysis revealed that approximately 75% of the cross-hybridizing subclones contained sequences orthologous to those within the sorghum PHYA BAC and less than 25% contained repetitive and/or BAC vector DNA sequences. The complete sequence of four genes, including up to 1 kb of their promoter regions, was identified in the maize PHYA BAC. Nine orthologous gene sequences were identified in the rice PHYA BAC. Sequence comparison of the orthologous sorghum and maize genes aided in the identification of exons and conserved regulatory sequences flanking each open reading frame. Within genomic regions where micro-colinearity of genes is absolutely conserved, gene-island sequencing is a particularly useful tool for comparative analysis of genomes between related species.Many species within the grass family Poaceae provide staple grain and forage supplies for humans and animals and thus are of great economic and humanitarian importance. Members of the grass family are found in wide ranging areas of the world, demonstrating adaptability to diverse environmental conditions. Although genome sizes can vary greatly in the grasses (e.g. 420 Mb and 16,000 Mb for rice [Oryza sativa] and hexaploid wheat [Triticum aestivum], respectively [Arumuganathan and Earle, 1991]), recombinational mapping studies using common DNA markers indicate that gene order is generally conserved within long physical intervals between family members (Hulbert et al., 1990; Ahn and Tanksley, 1993;Van Deynze et al., 1998;Goff et al., 2002). This information has been used to construct comparative genetic maps among many grass species (for review, see Gale, 1997, 2000;Gale and Devos, 1998). The large variation in genome size observed in the grass family is attributable in part to differences in ploidy and to variation in the abundance of repetitive elements, primarily retrotransposons, located between low copy number genic regions in the genome (SanMiguel et al., 1996). In maize (Zea mays), retrotransposons are estimated to make up 50% to 80% of the genome (SanMiguel and Bennetzen, 1998). The repetitive sequences have little apparent sequence conservation among species (Hulbert et al., 1990; Bennetzen et al., 1994;Chen et al., 1998).Because of their widespread economic importance and genetic resources, rice and maize have been focal poin...

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Targeted Analysis of Orthologous Phytochrome A Regions of the Sorghum, Maize, and Rice Genomes using Comparative Gene-Island Sequencing

et al. 2002

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“…Similarly, comparative mapping of the sorghum genome using maize probes (Hulbert et al, 1990;Binelli et a!., 1992;Whitkus et al, 1992;Melake Berhan et al, 1993) revealed a large degree of synteny, but there were several instances of chromosomal rearrangements.…”

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confidence: 99%

Comparative genome mapping of sugar cane with other species within the Andropogoneae tribe

et al. 1994

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Comparative mapping within the tribe Andropogoneae has recently progressed with the development of mapped maize genomic probes that can be used for sorghum and sugar cane genomes. In the present study, data from previous reports were used to locate various linkage groups of sugar cane and sorghum on the genomic map of maize. Syntenic genome regions in the three plants were determined according to existing bridge-loci. The distribution of these synteny clusters closely matched the duplication pattern in maize. In several cases, the two arms of a single maize chromosome corresponded to at least two synteny clusters. There seem to be common chromosome rearrangements between maize and sugar cane and between maize and sorghum. In this respect, sugar cane and sorghum appear to be more closely related than either one with maize. A more detailed analysis of two synteny clusters was undertaken using recent sugar cane data to compare gene orders and recombination rates of the three plants. The three genomes showed colinearity in these regions. Distances between genes were similar in maize and sorghum, whereas sugar cane tended to display less recombination, at least in the varietal progeny investigated.

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“…There have been many efforts to make comparative maps between grass species such as maize and sorghum (Hulbert et al 1990;Binelli et al 1992;Whitkus et al 1992), sugarcane, maize and sorghum (Dufour et al 1997), and rice and sorghum Nagamura et al 1998). The exact extent of co-linearity is often under estimated in crops whose maps are not saturated.…”

Section: Comparative Genome Mapping Of Sorghum and Ricementioning

confidence: 99%

Plant genomics and agriculture: From model organisms to crops, the role of data mining for gene discovery

Ortíz¹,

Mahalakshmi²

2001

Electron. J. Biotechnol.

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Similarity of maize and sorghum genomes as revealed by maize RFLP probes

Cited by 80 publications

References 29 publications

Targeted Analysis of Orthologous Phytochrome A Regions of the Sorghum, Maize, and Rice Genomes using Comparative Gene-Island Sequencing

Targeted Analysis of Orthologous Phytochrome A Regions of the Sorghum, Maize, and Rice Genomes using Comparative Gene-Island Sequencing

Comparative genome mapping of sugar cane with other species within the Andropogoneae tribe

Plant genomics and agriculture: From model organisms to crops, the role of data mining for gene discovery

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