A detailed RFLP map of Sorghum bicolor x S. propinquum, suitable for high-density mapping, suggests ancestral duplication of Sorghum chromosomes or chromosomal segments

Chittenden, L. M.; Schertz, K. F.; Lin, Yi Ru; Wing, Rod A.; Paterson, Andrew H.

doi:10.1007/bf00225786

Cited by 200 publications

(125 citation statements)

References 30 publications

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“…One of the bigger surprises deriving from angiosperm genomes sequenced to date is the prominence of ancient genome duplication, and the grasses are no exception. Even in clearly diploid taxa with relatively low chromosome numbers and largely bivalent pairing at meiosis, RFLP maps hinted at large-scale duplications (Chittenden et al, 1994;Kishimoto et al, 1994;Nagamura et al, 1995). These interpretations were subsequently borne out by the rice genome sequence, revealing a genome duplication that occurred in a common grass ancestor .…”

Section: Duplication and Diploidization Of Grass Genomesmentioning

confidence: 99%

Comparative Genomics of Grasses Promises a Bountiful Harvest

Paterson

Bowers²,

Feltus³

et al. 2009

Plant Physiology

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Section: Duplication and Diploidization Of Grass Genomesmentioning

confidence: 99%

Comparative Genomics of Grasses Promises a Bountiful Harvest

Paterson

Bowers²,

Feltus³

et al. 2009

Plant Physiology

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“…The likely colinear relationship between large portions of the maize and sorghum genomes coupled with the smaller genome size of sorghum makes comparative map-based cloning studies especially attractive and feasible for this species. Dense genetic maps have been established for sorghum (Whitkus et al, 1992;Melake-Berhan et al, 1993;Chittenden et al, 1994;Dufour et al, 1997;Boivin et al, 1999;Peng et al, 1999;Bhattramakki et al, 2000;Menz et al, 2002). These sorghum maps contain DNA markers common to maize and other grass genetic maps, making crossreferencing between these species possible.…”

mentioning

confidence: 99%

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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“…The probes were labeled by random primer labeling system (RediPrimer II, Amersham, UK). The procedure for hybridization and autoradiography were as described by Chittenden et al [33].…”

Section: Southern Analysismentioning

confidence: 99%

Cloning and characterization of a FLORICAULA/LEAFY ortholog, PFL, in polygamous papaya

Moore

Albert

et al. 2005

Cell Res

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The homologous genes FLORICAULA (FLO) in Antirrhinum and LEAFY (LFY) in Arabidopsis are known to regulate the initiation of flowering in these two distantly related plant species. These genes are necessary also for the expression of downstream genes that control floral organ identity. We used Arabidopsis LFY cDNA as a probe to clone and sequence a papaya ortholog of LFY, PFL. It encodes a protein that shares 61% identity with the Arabidopsis LFY gene and 71% identity with the LFY homologs of the two woody tree species: California sycamore (Platanus racemosa) and black cottonwood (Populus trichocarpa). Despite the high sequence similarity within two conserved regions, the N-terminal proline-rich motif in papaya PFL differs from other members in the family. This difference may not affect the gene function of papaya PFL, since an equally divergent but a functional LFY ortholog NEEDLY of Pinus radiata has been reported. Genomic and BAC Southern analyses indicated that there is only one copy of PFL in the papaya genome. In situ hybridization experiments demonstrated that PFL is expressed at a relatively low level in leaf primordia, but it is expressed at a high level in the floral meristem. Quantitative PCR analyses revealed that PFL was expressed in flower buds of all three sex types -male, female, and hermaphrodite with marginal difference between hermaphrodite and unisexual flowers. These data suggest that PFL may play a similar role as LFY in flower development and has limited effect on sex differentiation in papaya.

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A detailed RFLP map of Sorghum bicolor x S. propinquum, suitable for high-density mapping, suggests ancestral duplication of Sorghum chromosomes or chromosomal segments

Cited by 200 publications

References 30 publications

Comparative Genomics of Grasses Promises a Bountiful Harvest

Comparative Genomics of Grasses Promises a Bountiful Harvest

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

Cloning and characterization of a FLORICAULA/LEAFY ortholog, PFL, in polygamous papaya

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