Cytoplasmic-nuclear male sterility in pearl millet: comparative RFLP and transcript analyses of isonuclear male-sterile lines

The identification of diagnostic cytoplasmic molecular markers is of prime interest to pearl millet breeders wishing to identify sources of cytoplasmic-nuclear male sterility (CMS) which can be used as an alternative to the single source currently used in the production of F₁ hybrid seed. Here, we report the classification of five pearl millet CMS sources based on RFLP analysis of isonuclear lines carried out using mitochondrial gene-specific DNA probes in combination with eight restriction endonucleases. On the basis of RFLP data, the five CMS cytoplasms can be distinguished from each other and from the isonuclear fertile cytoplasm. In addition, based on cox1, cox3, atp6 and atp9 polymorphisms, these lines can be classified into two major groups: one corresponds to A₅, A_egp, A_v and A₁ cytoplasms, and the other consists of the A₄ cytoplasm. Our results suggest that a rearrangement involving the cox1 gene might be related to CMS in the first group (A₅, A_egp, A_v and A₁), whereas a rearrangement within the atp6/cox3 cluster region might be related to CMS in the second group (A₄).     

RFLP analysis of mitochondrial DNA from cytoplasmic male-sterile lines of pearl millet

Mitochondrial DNA (mtDNA) from 13 cytoplasmic male-sterile (cms) lines from diverse sources were characterized by Southern blot hybridization to pearl millet and maize mtDNA probes. Hybridization patterns of mtDNA digested with PstI, BamHI, SmaI or XhoI and probed with 13.6-, 10.9-, 9.7- or 4.7-kb pearl millet mtDNA clones revealed similarities among the cms lines 5141 A and ICMA 1 (classified as the S-A1 type of cytoplasm based on fertility restoration patterns), PMC 30A and ICMA 2. The remaining cms lines formed a distinct group, within which three subgroups were evident. Among the maize mitochondiral gene clones used, the coxI probe revealed two distinct groups of cytoplasms similar to the pearl millet mtDNA clones. The atp9 probe differentiated the cms line 81 A4, derived from P. glaucum subsp. monodii, while the coxII gene probe did not detect any polymorphism among the cms lines studied. MtDNA digested with BamHI, PstI or XhoI and hybridized to the atp6 probe revealed distinct differences among the cms lines. The maize atp6 gene clone identified four distinct cytoplasmic groups and four subgroups within a main group. The mtDNA fragments hybridized to the atp6 gene probe with differing intensities, suggesting the presence of more than one copy of the gene in different stoichiometries. Rearrangements involving the coxI and/or rrn18-rrn5 genes (mapped within the pearl millet clones) probably resulted in the S-A1 type of sterility. Rearrangements involving the atp6 gene (probably resulting in chimeric form) may be responsible for male sterility in other cms lines of pearl millet.     

Downy mildew incidence of pearl millet hybrids with different male-sterility inducing cytoplasms

The use of different sources of cytoplasmic male sterility (CMS) in hybrid seed production of pearl millet [Pennisetum glaucum (L.) R. Br.] is advocated to avoid possible disease epidemics occurring due to cytoplasmic uniformity. The effects of commercially unexploited, but potentially exploitable, sources of CMS, like A₂, A₃ and A₄, on downy mildew [Sclerospora graminicola (Sacc.) Schroet] incidence were studied by using the disease incidence of isonuclear hybrids with male-sterile and fertile cytoplasm. The mean downy mildew incidence of hybrids carrying different male-sterile cytoplasm was similar to that of hybrids retaining the fertile cytoplasm. The cytoplasm accounted for only 0.6% of the total variation and its effect was non-significant; pollinators could explain most of the variation in determining the disease incidence of hybrids. This suggested that these male-sterile cytoplasms are not linked to downy mildew susceptibility and thus can be exploited commercially to broaden the cytoplasmic base of the male-sterile lines and, ultimately, of hybrids.     

Effect of A1 cytoplasm on the combining ability for smut severity in pearl millet

Among the various available sources of male-sterile cytoplasm in pearl millet [Pennisetum glaucum (L.) R.Br.], the A₁ source has been exploited the most for the breeding of commercial F₁ hybrids. The effect of this source on the combining ability (CA) for smut severity was studied since it is the CA that determines the performance of hybrids. The effect was estimated by comparing the CA estimates of 5 pairs of lines and 35 pairs of crosses with and without A₁ cytoplasm. The cytoplasm showed either a significantly desirable or at least no adverse effect on the CA of 4 out of the 5 line pairs and 56 out of 70 pairs of comparison of crosses in two environments. The differential effect of cytoplasm in some pairs might be due to its interaction with nuclear genes. These results further substantiated that the A₁ cytoplasm is not linked with increased smut severity in pearl millet hybrids.     

Mitochondrial DNA-RFLP Analysis Distinguishes New CMS Sources in Pearl Millet (Pennisetum glaucum (L.) R. Br.)

Restriction fragment length polymorphism (RFLP) of mitochondrial (mt) DNA provides a rapid and effective method to assess heterogeneity among male sterile cytoplasms. Six isonuclear A-lines (81 A₁, with Tift 23A₁, cytoplasm, ICMA 88001 (= 81A_v) with Violaceum cytoplasm, 81A (=81A₄) with monodli = violaceum cytoplasm, Pb 310A₂ and Pb 311A₂ with A₂ cytoplasm from L 66A, and Pb 406A₃ with A₃ cytoplasm from L 67A), nine cytoplasmic male-sterility sources from Large-Seeded Genepool (LSGP 6, LSGP 14, LSGP 17, LSGP 22, LSGP 28, LSGP 36, LSGP 43, LSGP 55 and LSGP 66) and two each from Early Genepool (EGP 33 and EGP 15) and Population Varieties (PV 1 and PV 2) were characterized for variation in their mitochondrial genomes following Southern blot hybridizations using homologous (pearl millet 13.6 kb, 10.9 kb, 9.7 kb and 4.7 kb clones) and heterologous (maize atp6 and coxl clones) mitochondrial DNA (mtDNA) probes. Following cluster analysis based on similarity indices for the RFLP banding patterns observed, we identified seven cytoplasmic groups within LSGP. Two (LSGP 43 and LSGP 66) of these were quite distinct from each other as well as from other cytoplasms. This clearly indicates that besides serving as a source of diversity for agronomic and adaptation traits, broad-based gene pools can also provide diverse sources of cytoplasmic male sterility. These new CMS sources were also compared with standard CMS systems and cytoplasm-specific restriction fragments were identified.     

Molecular markers for rust and pyricularia leaf spot disease resistance in pearl millet

 Pearl millet [Pennisetum glaucum (L.) R.Br.] is a warm-season grass used for food, feed, fodder and forage, primarily in countries of Africa and India but grown around the world. The two most-destructive diseases to pearl millet in the United States are rust (caused by Puccinia substriata var. indica) and pyricularia leaf spot (caused by Pyricularia grisea). Genes for disease resistance to both pathogens have been transferred into agronomically acceptable forage and grain cultivars. A study was undertaken to identify molecular markers for three rust loci and one pyricularia resistance locus. Three segregating populations were screened for RAPDs using random decamer primers and for RFLPs using a core set of probes detecting single-copy markers on the pearl millet map. The rust resistance gene Rr ₁ from the pearl millet subspecies P. glaucum ssp. monodii was linked 8.5 cM from the RAPD OP-G8₃₅₀. The linkage of two RFLP markers, Xpsm108 (15.5 cM) and Xpsm174 (17.7 cM), placed the Rr ₁ gene on linkage-group 3 of the pearl millet map. Rust resistance genes from both Tift 89D₂ and ICMP 83506 were placed on linkage-group 4 by determining genetic linkage to the RFLP marker Xpsm716 (4.9 and 0.0 cM, respectively). Resistance in ICMP 83506 was also linked to the RFLP marker Xpsm306 (10.0 cM), while resistance in Tift 89D₂ was linked to RAPD markers OP-K19₃₅₀ (8.8 cM) and OP-O8₃₅₀ (19.6 cM). Fragments from OP-K19 and OP-O8 in the ICMP 83506 population, and Xpsm306 in the Tift 89D₂ population, were monomorphic. Only one RAPD marker (OP-D11₇₀₀, 5.6 cM) was linked to pyricularia leaf spot resistance. Attempts to detect polymorphisms with rice RFLP probes linked to rice blast resistance (Pyricularia oryzae; syn=P. grisea) were unsuccessful. Received: 19 May 1997 / Accepted: 21 October 1997     

Genetic Diversity Analysis of Elite Pearl Millet Inbred Lines using RAPD and SSR Markers

Pearl millet [Pennisetum glaucum (L) R Br] is one of the widely grown cereal crops in the arid and semi-arid regions of Africa and India. We undertook a study to ascertain the genetic diversity in 21 elite inbreds (parental lines of 13 pearl millet hybrids in India) using 20 Random Amplified Polymorphic DNA (RAPD) and 21 Simple Sequence Repeat (SSR) markers. Based on Polymorphism Information Content (PIC) and unique banding profiles, 6 RAPD primers OPD12, OPA16, OPB6, OPA19, OPB5 and OPB1, and 3 SSR markers Xpsmp2208, Xpsmp2223 and Xpsmp2220, were found to be highly discriminative. The PIC values ranged from 0.28 to 0.48 for the RAPD and from 0.24 to 0.60 for the SSR markers. Cluster analysis and principal component analysis of the combined dataset of RAPD and SSR markers indicated moderate genetic divergence among the elite pearl millet germplasm, besides unraveling the genetic relationships among the male sterile lines and the restorers.     

Assessment of cytoplasmic differences of near-isonuclear male-sterile lines in pearl millet

Four near-isonuclear polycytoplasmic versions of 81A and two of Pb 402A male-sterile lines of pearl millet (Pennisetum typhoides) were used in factorial matings with five inbred male testers in different combinations in three sets. The cytoplasmic differences were studied for several agronomic traits using mean values and general combining effects (gca) of male-sterile lines, and specific combining ability effects of hybrids. The fertility/ sterility behaviour of different male-sterile lines in crosses with common male parents was also studied. Significant differences among near-isonuclear polycytoplasmic lines were observed in mean values for a few traits such as plant height, leaf length and peduncle length, but the differences for combining ability were more pronounced. The A₃ cytoplasm was a better general combiner than the A₂ cytoplasm for grain yield and both A₂ and A₃ cytoplasms were better general combiners for leaf length and peduncle length. In addition, superiority of A₃ cytoplasm for gca was observed for plant height and ear characters over the A₂ cytoplasm in set II. A differential behaviour of cytoplasms, both in combination with a common pollinator and across pollinators, was observed for several traits. The results provide evidence for the distinctiveness of different cytoplasmic sources in pearl millet and for the influence of cytoplasmic factors on the phenotypic expression of nuclear genes. A diversification of male sterility sources in the breeding of pearl millet hybrids is suggested.     

DNA fragments of organellar origin in random amplified polymorphic DNA (RAPD) patterns of sugar beet (Beta vulgaris L.)

The technique of random amplified polymorphic DNA (RAPD) offers a broad range of applications in the investigation of plant genomes. A promising prospect is the use of RAPD products as genetic markers. We have investigated a possible organellar source of fragments in RAPD patterns of total DNA. Two nearly-isogenic lines of cytoplasmic male-sterile and male-fertile sugar beet (Beta vulgaris L.) were subjected to RAPD analysis with six different primers. Total, nuclear, mitochondrial (mt), and chloroplast (cp), DNA from each line were investigated. Reproducible DNA fingerprints could be obtained from both organellar DNAs. Differences in band patterns of mtDNA between cytoplasmic male-sterile and -fertile lines were observed with five out of six primers, whereas different cpDNA patterns were generated by one of the primers. Consequently, the RAPD technique can be used to discriminate between different cytoplasms. Clear evidence is provided for the organellar origin of fragments in genomic (total DNA) RAPD patterns. The consequences of these results for the interpretation of RAPD analyses are discussed.     

Influence of A1 cytoplasmic substitution on the downy-mildew incidence of pearl millet

Large-scale cultivation of pearl millet [Pennisetum glaucum (L.) R. Br. F₁ hybrids in India has led to increased incidence of downy-mildew (Sclerospora graminicola). There is concern that the A₁ male-sterile cytoplasm used in all the hybrids released so far is responsible for this increase. The influence of A₁ malesterile cytoplasm on downy-mildew incidence in pearl millet was studied by comparing the disease reaction of 40 pairs of F₁ hybrids, each pair carrying respectively a₁ male-sterile and normal B cytoplasm. Mean downy-mildew incidence was similar in the hybrids carrying either A₁ male-sterile or B cytoplasm. The general combining ability of lines with and without A₁ cytoplasm was found to be similar for downy-mildew incidence. These results indicated that in pearl millet A₁ cytoplasm is not associated with increased downymildew incidence. The possible danger of using only one source of cytoplasm has been briefly discussed.     

Mitochondrial Respiration Associated with Cytoplasmic Male Sterility in Pearl Millet

Respiratory activities in vegetative tissues and the isolated mitochondria of etiolated seedlings and reproductive tissues were studied in two cytoplasmic male sterile (CMS) lines having the same A, cytoplasm with different nuclear backgrounds of pearl millet along with their maintainer, restorer and restored lines. In addition, the assays of cytochrome c oxidase and succinate dehydrogenase were performed in isolated mitochondria. Cyanide-sensitive, cyanide-insensitive and total respirations in vegetative tissues and isolated mitochondria were lower in both the CMS lines than their respective maintainers, restorers and restored hybrids. Except in CMS lines, uptake of 0₂ during anther development increased from premeiotic to postmeiotic stage in all the lines. Consumption of 0₂,however, declined from meiotic to postmeiotic stage in the anthers of CMS lines. Pure mitochondrial preparations were obtained which were 92-94% intact. Enzymes, cytochrome c oxidase (complex IV) and succinate dehydrogenase (complex II) showed lower activities in both the CMS lines than their respective maintainer, restorer and restored hybrids. The CMS lines also displayed lower levels of nuclear encoded enzymes, viz., alternative oxidase and succinate dehydrogenase.     

Studies on potassium release in an inceptisol soil (Holambi Series) at the minimum level of exchangeable potassium

Summary Ammonium acetate extractable potassium in the soil reached a minimum value of 6.8 mg K/100g soil after 14 crops of wheat and pearl millet in the field without applying any potassium fertilizer. At this level of ammonium acetate extractable K both wheat and pearl millet utilized about, 90 per cent of the total K from non-exchangeable sources. Wheat and pearl millet were grown in this soil in the greenhouse at different levels of K. At K₀ level wheat utilized 86 per cent of the total K uptake from the non-exchangeable source and pearl millet, 95 per cent. At K₁ level, wheat utilized only 19 per cent but at higher levels of K, there was build up in the K status of soils. In the case of pearl millet at K₁, K₂ and K₃ levels 59, 13 and 22 per cent of total uptake were contributed by non-exchangeable forms. The total K uptake by pearl millet was more than double that by wheat. Plant analysis showed that 83 per cent of the total K in wheat was contained in the shoot portion and the rest in the roots. The corresponding figures for pearl millet were 94 and 6 per cent.     

A new source of cytoplasmic male sterility in pearl millet: RFLP analysis of mitochondrial DNA.

A new source of cytoplasmic male sterility (cms) in pearl millet (Pennisetum glaucum (L.) R.Br.) derived from a half-sib progeny of the Early Gene Pool (EGP 261) and used in a male-sterile line, ICMA 90111, was compared with other known cms sources for RFLP of mitochondrial (mt) DNA. Southern blot hybridization of mtDNA from ICMA 90111 digested with several restriction enzymes and probed with homologous mtDNA clones from pearl millet and heterologous gene clones from maize and wheat revealed the RFLP patterns of ICMA 90111 distinct from others studied so far. The dendrogram of male-sterile lines constructed from the Southern blot hybridization patterns indicated that ICMA 90111 represents a separate group. Our results suggest that this source of cms is unique in several respects.     

Genotype identification and assessment of genetic relationships in pearl millet [Pennisetum glaucum (L.) R. Br] using microsatellites and RAPDs

 The potential of DNA markers such as microsatellites, minisatellites and RAPDs was investigated in pearl millet [Pennisetum glaucum (L.) R. Br] with respect to their abundance and variability. Southern analysis, using 22 different di-, tri-, tetra- and penta-oligonucleotide probes and five minisatellite probes, identified (GATA)₄ as the most useful probe for the detection of multiple polymorphic fragments among pearl millet cultivars and landraces from India. The clustering patterns of pearl millet cultivars and landraces based on (GATA)₄ and RAPD (randomly amplified polymorphic DNA) markers differed. The landraces, representing eight states in India, could not be grouped based on their geographical distribution with the DNA markers. RAPD analysis revealed a high degree of genetic diversity among the cultivars and landraces employed in this study. The probability of an identical match by chance for any two genotypes using (GATA)₄ and RAPDs was 3.02×10^-20 for cultivars and 5.2×10^-9 for landraces. The microsatellite (GATA)₄ and RAPDs provide useful tools for genotype identification and for the assessment of genetic relationships in pearl millet. Received: 19 October 1997 / Accepted: 9 December 1997     

Molecular diversity of male sterility inducing and male-fertile cytoplasms in the genus Helianthus

The organisation of mtDNA was investigated for 28 sources of cytoplasmic male sterility (CMS) and a fertile line (normal cytoplasm) of Helianthus annuus by Southern hybridisation. In addition to nine known mitochondrial genes (atp6, atp9, cob, coxI, coxII, coxIII, 18S, 5S and nd5) three probes for the open reading frames in the rearranged area of PET1, orfH522, orfH708 and orfH873, were used. Genetic similarities of the investigat-ed cytoplasms varied between 0.3 and 1. Cluster analyses using the UPGMA method allowed the distinction of ten mitochondrial (mt) types between the 29 investigated cytoplasms. Most mitochondrial types comprise two or more CMS sources, which could not be further separated, like the PET1-like CMS sources (with the exception of ANO1 and PRR1), or ANN1/ANN2/ANN3, ANN4/ ANN5, ARG3/RIG1, BOL1/EXI1/PEF1/PEP1 and GIG1/ PET2. ANL1, ANL2 and the fertile cytoplasms are also regarded as one mitochondrial type. Unique banding patterns were only observed for ANT1 (atp6), MAX1 (atp6, orfH522 and orfH708) and PRR1 (coxII). However, four of the mitochondrial types showed unique hybridisation signals: ANN4/ANN5 had characteristic bands for atp6 and orfH708, PEF1/PEP1/EXI1/BOL1 for atp6 and coxII, and PET2/GIG1 for atp9. The PET1-like cytoplasms all shared the same patterns for orfH522, orfH708 and cob (except ANO1). It could be demonstrated that CMS sources, like, e.g., PET2 and PEF1, are different from PET1 in mtDNA organisation and the CMS mechanism. Therefore, these CMS sources represent interesting candidates for the development of new hybrid breeding systems based on new CMS mechanisms. Received: 20 April 2001 / Accepted: 3 August 2001     

Cytological and molecular characterization of a novel monogenic dominant GMS in <Emphasis Type="Italic">Brassica napus</Emphasis> L.

A novel genic male sterile (GMS) line in Brassica napus L., which was identified in 1999, was found to be controlled by a monogenic dominant gene, which we have designated as MDGMS. The microspores of the MDGMS abort before the degradation of the tapetal cell layer. The F1 fertility from any fertile lines crossed with MDGMS segregated and the ratio was close to 1:1. Bulked segregation analysis (BSA) was employed to identify random amplified polymorphic DNA (RAPD) markers linked to the Ms gene in MDGMS. Among 880 random 10-mer oligonucleotide primers screened against the bulk DNA of sterile and fertile, one primer S243 (5′-CTATGCCGAC-3′) gave a repeatable 1500-bp DNA polymorphic segment S243₁₅₀₀ between the two bulks. Analysis of individual plants of each bulks and other types of GMS and cytoplasmic male sterility (CMS) lines suggest that the RAPD marker S243₁₅₀₀ is closely linked to the MDGMS locus in rapeseed. This RAPD marker has been converted into sequence characterized amplified region (SCAR) marker to aid identification of male-fertility genotypes in segregating progenies of MDGMS in marker-assisted selection (MAS) breeding programs.     

Linkage analysis of a fertility restoring mutant generated from CMS rice

 DNA polymorphism between a cytoplasmic male-sterile rice line II-32A, the male-fertile maintainer counterpart II-32B, a fertile revertant (T24), as well as two commercial indica restorers, was analyzed with randomly amplified polymorphic DNA (RAPD). A very low degree of polymorphism was found between the revertant T24 and II-32A compared with that of indica rice varieties. This result, together with agronomic and genetic evidence, suggests the revertant to be a product of a nuclear mutation. An analysis of polymorphism between II-32A and the revertant T24 with 510 RAPD decamer primers identified the co-segregating markers OPB07₆₄₀ and OPB18₁₀₀₀ to be linked to a sterile allele of the restoring locus in the revertant T24, at a distance of 5.3 cM. RAPD analysis of a mapping population of Tesanai2/CB with primer OPB07 revealed linkage of OPB07₆₄₀ with RG374 (10.8 cM) and RG394 (8.8 cM) on chromosome 1. Thus the restorer gene, designated Rf ₅, was tentatively localized between RG374 and RG394 on chromosome 1 and appears to be independent of other mapped restorer genes in rice. Received: 11 November 1997 / Accepted: 17 December 1997     

小麦D^2型与K型,V型,T型细胞质雄性不育系线粒体DNA的RAPD比较分析

采用ＲＡＰＤ方法比较新育成的小麦（ＴｒｉｔｉｃｕｍａｅｓｔｉｖｕｍＬ．）Ｄ２型不育系ｍｓＤ２ＣＡ８０５７与Ｋ型、Ｖ型和Ｔ型细胞质雄性不育系的线粒体ＤＮＡ（ｍｔＤＮＡ）。结果表明,ｍｓＤ２ＣＡ８０５７的ｍｔＤＮＡ不同于其它３种类型不育系,而其它类型不育系的ｍｔＤＮＡ彼此也各不相同。这一结果从分子水平上为鉴定该Ｄ２不育系的不育类型提供了证据。实验还发现在胞质来源相同而核背景不同的Ｔ型不育系间存在线粒体基因组多态性,这是关于小麦中Ｔ型不育系ｍｔＤＮＡ在常规回交转育过程中发生变异的直接证据。这种变异在很大程度上可能是受不同核背景影响的结果。     

RAPD Comparison Study on Mitochondrial DNA of the D2 Cytoplasmic Male Sterile (CMS) Line with K-, V-and T-type CMS Lines in Wheat

A new line of cytoplasmic male sterile (CMS) wheat ( Triticum aestivum L. ) named msD2-CA8057 (briefly as D:) was compared with K-, V- and T-type CMS lines by mitochondrial DNA (mtDNA) RAPD analysis. It was revealed that the mtDNA of this D2 line was different from that of the other three types although differences were also found between the K-, V- and T-type lines themselves. This result provided some evidences at the molecular level for the identification of the cytoplasm of this D2 line as a new type of CMS line. In the experiment the authors also found polymorphism between two CMS lines, which had the same source of T-type cytoplasm but had different nuclear background. This was the first time to provide direct evidence about the mtDNA mutation in T-type CMS wheat lines during the routine backcross process. Such changes are most likely resulted from the influence of different nuclear background.