The quantitative analysis of chromosome pairing and chiasma formation based on the relative frequencies of M I configurations

In autotetraploids, chromosome pairing may be in the form of quadrivalents or bivalent pairs. Whether or not the quadrivalents are maintained until first meiotic metaphase depends on the formation of chiasmata. The relative frequencies of M I configurations thus contain information both on pairing and on chiasma formation. With distal chiasma localisation six configurations can be recognised and their relative frequencies determined: ring quadrivalents, chain quadrivalents, trivalents (with univalent), ring bivalents, open (rod) bivalents, univalent pairs. These represent five degrees of freedom permitting five parameters to be estimated: the frequency (f) of quadrivalent pairing; the frequencies of chiasmate association of the two ends (arms in metacentrics), a′, b′, after quadrivalent pairing, and a, b after bivalent pairing. — The appropriate formulae have been derived and applied to observations on Tradescantia virginiana (4n=24) which has pronounced distal chiasma localisation. Slight modifications make the model applicable to autotetraploids with interstitial in addition to distal chiasmata. In T. virginiana, chromosome pairing appeared to be random between homologues (65.8% quadrivalent pairing; 55.4% observed at M I). After quadrivalent pairing chiasmate association is frequent in the “average long” arm (95.0%) and much less so in the other arm (60.5%). This is attributed to partner exchange. After bivalent pairing chiasma frequencies are still different for the two arms (93.8% and 83.5% association respectively) but much less pronounced. Various complications are discussed.     

Meiotic behaviour of single-arm tetrasomic combinations of isochromosomes,telocentrics and normal chromosomes in rye (Secale cereale L.)

The isochromosome studied was derived from the short arm of the satellite chromosome of rye (Secale cereale, 2n=14); the telocentrics represent both the short and long arms of the same chromosome. Three different combinations, tetrasomic for the short arm, have been composed and studied: I: 2 isochromosomes (short arm) + 2 telocentrics (long arm) + 6 normal pairs. II: 1 isochromosome + 2 telocentrics (short arm) + 2 telocentrics (long arm) + 6 normal pairs. III: 1 isochromosome + 1 telocentric (short arm) + 1 normal satellite chromosome + 1 telocentric (long arm) + 6 normal pairs. — Over 20,000 cells were analysed. Simple mathematical models describing the frequencies of the different types of MI configurations in terms of frequency of chiasmata in the different pairing combinations of the polysomic arms, and of the frequency of multivalent pairing of this arm, were developed. They were used to derive estimates for chiasma frequencies and multivalent pairing frequencies in the different chromosome constitutions from the observations on configuration frequencies. Variation between plants and within plants was studied, and it was concluded that much of the within plant heterogeneity was due to regulatory variation expressed independently in different chromosomal segments. There was also a significant genetic component. Analysis of the reasons for the models to fail under certain conditions led to suggestions for extension of the models.     

The quantitative analysis of chromosome pairing and chiasma formation based on the relative frequencies of MI configurations. V. Interchange trisomics

Information obtained previously and presently on chromosome pairing and chiasma formation in trisomics and in interchange heterozygotes has been applied in newly constructed models for calculating expected MI configuration frequencies in interchange trisomics. Good fit betwen calculated and observed frequencies in some and poor fit in other cases confirmed the expectation of genetic variation in the crossing-over potentials of some or all chromosome regions. If conclusions in respect of chromosome pairing pattern are to be based on relative frequencies of MI configurations, valid values for crossing-over potentials are required. These can only be obtained from genetically comparable material. A few more disturbing factors are recognised. Environmental effects are one of these factors but may have a relatively simple character. Good agreement between expected and observed frequencies of configurations was taken to indicate the validity of the assumption that homologous chromosome end segments have equal probability of being involved in pairing, irrespective of the length of the segment. This conclusion was confirmed by the segregation of chromosomal types in the progenies of interchange trisomics: the excess chromosome was combined as frequently with the interchange set and with the normal set respectively, as expected on basis of the same models, assuming 60–80% viability of trisomes compared to diploids.     

AUTOTRIPLOID AND AUTOTETRAPLOID CYTOGENETIC ANALYSES: CORRECTION COEFFICIENTS FOR PROPOSED BINOMIAL MODELS

Correction coefficients have been derived for two-chiasmata models of autotriploids and autotetraploids to correct meiotic configuration frequencies obtained from the binomial method when the P values are 0.5. In addition, equations are derived for the direct calculation of meiotic configuration frequencies in autotriploids of the two-chiasmata model when P values are 0.5.     

Gene segregation in autotetraploids: prediction from meiotic configurations

Current systems of estimating gene segregation in autotetraploids usually are based on two extreme methods: chromosome segregation with absolute centromere linkage, or maximum equational segregation with crossing over always occurring between the centromeres and marker genes. The hiatus between the two methods is unacceptable quantitatively, and segregation of the d gene in tomato shows that neither method predicts an acceptable fit. We present a new meiotic configuration (MC) method of analyzing tetrasomic inheritance in autotetraploids that allows more accurate estimations of all intermediate types of segregation. The method is based on a maximum of two chiasmata per bivalent and four per quadrivalent. The theoretically expected numbers of bivalents and chain and circle quadrivalents are derived first. Chromosome frequencies from these configurations are then used to determine relative contributions from each configuration to the gamete genotypes by way of newly developed tables for gene segregation in various autotetraploid genotypes. The large sample sizes from classic 4x tomato (Solanum lycopersicum L.) data are used to demonstrate the stepwise method of calculating gamete genotypes, and the method gives acceptable fits for the data tested. The interspecific tetraploid hybrid Solanum lycopersicum × S. pimpinellifolium had good fits to expected autotetraploid segregation, supporting its autoploid nature and the fact that taxonomic rank should not be a consideration in designating categories of polyploids. Autotetraploid allozyme segregation data for several genes in one genus of another family had acceptable and usually better fits to the MC expectations than to the standard methods.     

The allotetraploidization of maize

Summary Allotetraploidization is the creation of artificial allotetraploids. Allotetraploidization of maize can be accomplished by concentrating differential pairing affinity (DPA) factors into lines by a recurrent selection breeding system. Selection will be based on changes in genetic ratios which are the result of changes in the relative frequencies of various pairing configurations caused by DPA. Part 1 of this series gave extensive data on gene segregation in trisomic and tetraploid heterozygotes. Some of these tetraploids behaved like segmental allotetraploids. Part 2 presented a model for gene segregation in segmental allotetraploids. This paper presents an analogous model for gene segregation in trisomic heterozygotes. The pairing configurations of trisomes are analyzed by considering pairing in single arms which then are combined to obtain pairing configurations for whole chromosomes. The chromosome disjunction patterns of the various pairing configurations are hypothesized and expected genetic ratios are given that result from different levels of DPA expressed in several hypothetical trisomes. The model analyzes the effect of random pairing in one arm and non-random pairing in the other arms. Also, the effect of crossing over is taken into account. Because crossing over rates are affected by the environment, part of the variability in the data (Part 1) is explained. In addition, an hypothesis is advanced to explain the frequent enhancement of pairing affinity following x-irradiation.Contribution from Agricultural Research/Science and Education Administration, US Department of Agriculture, University of Missouri, Columbia, Missouri, Missouri Agric. Exp. Sta. Jounal Series No. 8 670     

The effect of reciprocal translocations on segregation and multivalent formation in autotetraploids of rye,Secale cereale

Chromosomal segregation, and the frequency of large multivalents in Secale cereale were studied in autotetraploid duplex translocation heterozygotes. Models for estimating expected segregations and frequencies of multivalents were developed incorporating the probabilities of different chromosomal segments being bound by chiasmata. It appeared that the segregation of the two translocations tested fitted quite well the expected corrected segregation ratio of approximately 1: 11.5: 1, suggesting that induced preferential pairing was not strong enough to enhance preferential segregation resulting from random translocation segregation. Interspecific hybrids with S. montanum carrying the same translocations showed strong preferential pairing, i.e. significant deviation from the expected ratios.Three translocations tested (two not tested for segregation) showed a decrease in multivalent frequency mainly attributable to preferential pairing, especially in cases where the breakpoint was near one chromosome end. Possible reasons why preferential pairing is expressed here and not in the segregations are discussed.     

Chromosome Differentiation and Pairing Behavior of Polyploids: An Assessment on Preferential Metaphase I Associations in Colchicine-Induced Autotetraploid Hybrids within the Genus Secale

Preferential chromosome association at metaphase I has been analyzed and compared in autotetraploid cells obtained by colchicine treatment of hybrid diploid rye plants with different degrees of chromosomal divergence between homologs. The tendency to identical over homologous, but not identical, pairing preferences detected when homologous partners are contributed by less related parental lines indicates that chromosome differentiation may play an important role on preferential pairing behavior of polyploids. However, associations between more similar (identical) partners are not always favored, thus suggesting that additional factors must be considered. Other hypotheses for explaining pairing preferences in competitive situations are discussed. No clear relationship has been found between multivalent frequencies at metaphase I and chromosome differentiation between homologs or preferential pairing behavior. Therefore evolutionary divergences among related genomes should be carefully stated when evaluated from metaphase I configuration frequencies.     

SUPERNUMERARY CHROMOSOMES IN TRADESCANTIA II. EFFECT OF COLCHICINE ON MEIOTIC ISOCHROMOSOME CONFIGURATIONS

The effect of colchicine on meiotic pairing and configuration frequencies of three homologous isosupernumerary chromosomes was investigated. In the absence of colchicine, the three isochromosomes displayed a high degree of interchromosomal pairing and chiasma formation. As a consequence, a high frequency of bivalents and trivalents were observed at diakinesis-metaphase I. The unique structure of isochromosomes enables them to pair intrachromosomally (i.e., foldback pairing) yet the preferential occurrence of interchromosomal pairing suggests that all six arms of the three isosupernumerary chromosomes were in close association prior to or upon initiation of synapsis. Supernumerary chromosomes in microsporocytes treated during presynapsis or early synapsis with colchicine exhibited a significant reduction (P < 0.001) in the number of bivalents and trivalents at diakinesis. However, there was no reduction in overall chiasma frequency among supernumeraries due to the induction of increased intrachromosomal pairing and chiasma formation. A colchicine-sensitive association or alignment of homologues preceding effective pairing has been demonstrated in standard chromosomes of a number of plant species. This study provides the first evidence to indicate that at least certain supernumerary chromosomes may display presynaptic association as well. The results also support the strongly held contention that colchicine is not directly preventing or inhibiting the actual formation of chiasmata, since no reduction in chiasma frequency was observed in the isochromosomes.     

Genetic control of synapsis and recombination in Lolium amphidiploids

Homologous bivalent formation in amphidiploids of Lolium is promoted during meiosis by diploidising genes carried by A-chromosomes and by supernumerary B-chromosomes. The site and mode of action of these diploidising factors were investigated by comparing the relative frequencies of pairing configurations at meiotic prophase and metaphase I in several different hybrid genotypes. The results indicate that diploidising genes act predominatly by increasing the stringency of synapsis at early stages of meiotic prophase. By contrast, B-chromosomes appear to promote bivalent formation by ensuring that homoeologously paired chromosome segments within multivalents do not crossover. The results show that the additive effects of diploidising genes and B-chromosomes are to a certain extent separable in terms of their mode of action and timing during meiosis.     

Partial preferential chromosome pairing is genotype dependent in tetraploid rose

It has long been recognised that polyploid species do not always neatly fall into the categories of auto‐ or allopolyploid, leading to the term ‘segmental allopolyploid’ to describe everything in between. The meiotic behaviour of such intermediate species is not fully understood, nor is there consensus as to how to model their inheritance patterns. In this study we used a tetraploid cut rose (Rosa hybrida) population, genotyped using the 68K WagRhSNP array, to construct an ultra‐high‐density linkage map of all homologous chromosomes using methods previously developed for autotetraploids. Using the predicted bivalent configurations in this population we quantified differences in pairing behaviour among and along homologous chromosomes, leading us to correct our estimates of recombination frequency to account for this behaviour. This resulted in the re‐mapping of 25 695 SNP markers across all homologues of the seven rose chromosomes, tailored to the pairing behaviour of each chromosome in each parent. We confirmed the inferred differences in pairing behaviour among chromosomes by examining repulsion‐phase linkage estimates, which also carry information about preferential pairing and recombination. Currently, the closest sequenced relative to rose is Fragaria vesca. Aligning the integrated ultra‐dense rose map with the strawberry genome sequence provided a detailed picture of the synteny, confirming overall co‐linearity but also revealing new genomic rearrangements. Our results suggest that pairing affinities may vary along chromosome arms, which broadens our current understanding of segmental allopolyploidy.     

Estimation of preferential pairing rates in second-generation autotetraploid pacific oysters (Crassostrea gigas)

Although previously disregarded, polyploidy, and in particular autopolyploidy, is now believed to have played a prominent role in the evolution of plants and animals. We estimated the rate of preferential pairing in second-generation autotetraploid Pacific oysters from gametic frequencies. We found significant levels of preferential pairing in these recently generated autopolyploids, suggesting that genetic variation in standing populations may play a role in meiotic mechanisms of polyploids derived from these populations.     

A general polyploid model for analyzing gene segregation in outcrossing tetraploid species

Polyploidy has played an important role in higher plant evolution and applied plant breeding. Polyploids are commonly categorized as allopolyploids resulting from the increase of chromosome number through hybridization and subsequent chromosome doubling or autopolyploids due to chromosome doubling of the same genome. Allopolyploids undergo bivalent pairing at meiosis because only homologous chromosomes pair. For autopolyploids, however, all homologous chromosomes can pair at the same time so that multivalents and, therefore, double reductions are formed. In this article, we use a maximum-likelihood method to develop a general polyploid model for estimating gene segregation patterns from molecular markers in a full-sib family derived from an arbitrary polyploid combining meiotic behaviors of both bivalent and multivalent pairings. Two meiotic parameters, one describing the preference of homologous chromosome pairing (expressed as the preferential pairing factor) typical of allopolyploids and the other specifying the degree of double reduction of autopolyploids, are estimated. The type of molecular markers used can be fully informative vs. partially informative or dominant vs. codominant. Simulation studies show that our polyploid model is well suited to estimate the preferential pairing factor and the frequency of double reduction at meiosis, which should help to characterize gene segregation in the progeny of autopolyploids. The implications of this model for linkage mapping, population genetic studies, and polyploid classification are discussed.     

The pattern of pairing that is effective for crossing over in complex B-A chromosome rearrangements in maize

The study of the mechanism of meiotic homolog pairing, approached by comparing chiasma frequencies in rearranged segments that differ in relative length and intrachromosomal location, is substantially extended here. For the first time, two kinds of evidence were found that centers specialized for alignment pairing may exist in maize chromosomes: (1) for two segments, higher than average crossover frequency per unit length was maintained when these were located in several different chromosomal positions with respect to centromere and telomere, and in fact apart from their own normal centromeres and telomeres. High crossover frequencies in these segments regardless of position are considered to reflect innate capacity for alignment pairing due to relatively strong pairing center content. (2) For a short rearranged segment, chiasma frequency was drastically reduced, and evidence suggests that all of the chiasmata found there depended upon juxtaposition made possible by the completion of the zip-up pairing process in the other arms of the translocation configuration. This short segment is thought to be essentially devoid of pairing center content. It seems possible that crossover frequency depression in short rearranged segments may usually not be due, as commonly supposed, to mechanical difficulties inherent in formation of contorted configurations, but rather to absence of pairing centers within them and the relative rarity (compared to the normal sequence situation) of enabling zip-up pairing. Evidence also indicates that pairing which leads to crossing over must frequently occur between internal translocated segments and their normal sequence counterparts in a way which cannot be dependent upon zipping-up of two-by-two pairing initiated at or near telomeres. Pairing centers in maize are probably numerous and widely dispersed, since coarse direct proportionality is found when chiasma frequency is compared for an array of segment lengths.     

CYTOGENETIC ANALYSES OF AUTOPOLYPLOIDS: MODELS AND METHODS FOR TRIPLOIDS TO OCTOPLOIDS

Methods are presented for determining the frequencies and numbers of various meiotic configurations expected in autopolyploids. This allows one to test polyploids of unknown origin for agreement with expected meiotic configurations. Rejection of the autoploid hypothesis may indicate the presence of Ph-like genes or some type of alloploid. The models consider mean chiasma frequencies of 2, 3, and 4 per bivalent for triploids and tetraploids and 2 per bivalent for pentaploids, hexaploids, heptaploids, and octoploids. Literature data for a known autotriploid, autotetraploids, allotetraploids, and allopentaploids were tested against expectations of the models. There was generally good agreement between number of observed autoploid meiotic configuration and those expected in the models.     

Quantitative analysis of diploid translocation heterozygotes: test of models and equations

Summary Equations have been derived for two different models of chromosome pairing and chiasmata distribution. The first model represents the normal condition and assumes complete synapsis of homologous bivalents and the arms of interchange quadrivalents. This is followed by a nonrandom distribution of chiasmata among bivalents and multivalents such that each bivalent or bivalent-equivalent always has at least one chiasma. Univalents occur only as part of a III, I configuration at diakinesis or metaphase I. The second model assumes that a hologenomic mutation is present in which all chromosomes of a genome are equally affected. Two different assumptions can be made for such a mutation, and both give the same results: (1) homologous or homoeologous chromosome arms may be randomly paired or unpaired, but synapsis always leads to a crossover; (2) homologous or homoeologous arms always pair, but chiasmata are randomly distributed among the arms. The meiotic configurations at diakinesis or metaphase I are the same for both assumptions. Meiotic configurations of normal diploid interchange heterozygotes show good agreement with numbers predicted by the equations for nonrandom chiasmata distribution among configurations. Inter-specific hybrids with supernumerary chromosomes produced meiotic configurations frequencies in agreement with predictions of equations for random chiasmata distribution, but a hybrid without supernumeraries fitted the nonrandom expectations.     

Partial diploidization of meiosis in autotetraploid Arabidopsis thaliana

Meiosis was analyzed cytogenetically in autotetraploids of Arabidopsis, including both established lines and newly generated autotetraploid plants. Fluorescent in situ hybridization with 5S and 45S rDNA probes was used to identify the different chromosomes at metaphase I of meiosis. Multivalents were observed frequently in all the lines analyzed, but there were significant differences in multivalent frequency not only between the newly generated tetraploids and the established lines but also among the different established lines. The new tetraploids showed high multivalent frequencies, exceeding the theoretical 66.66% predicted by the simple random-end pairing model, in some cases significantly, thus indicating that Arabidopsis autotetraploids have more than two autonomous pairing sites per chromosome, despite their small sizes. The established lines showed fewer multivalents than the new autotetraploids did, but the extent of this reduction was strongly line and chromosome dependent. One line in particular showed a large reduction in multivalents and a concomitant increase in bivalents, while the other lines showed lesser reductions in multivalents. The reduction in multivalents was not uniformly distributed across chromosomes. The smaller chromosomes, especially chromosomes 2 and 4, showed the most marked reductions while the largest chromosome (1) showed virtually no reduction compared to the new tetraploids. It is concluded that the established autotetraploid lines have undergone a partial diploidization of meiosis, but not necessarily genetical diploidization, since their creation. Possible mechanisms for the resulting change in meiotic chromosome behavior are discussed.     

Meiotic behaviour of chromosomes 1R, 2R and 5R in autotetraploid rye

The meiotic behaviour of chromosomes 1R, 2R and 5R was studied in C-banded preparations of autotetraploid rye. Analysis of pairing and chiasma formation was based on metaphase I configurations, using the model designed by Sybenga, with slight modifications. Frequencies of two modes of pairing (one quadrivalent or two bivalents) differed from those expected for random pairing. Although preferential pairing for some arm pairs of chromosome 2R was detected, this did not seem to be the cause of the increased bivalent pairing. This increase was attributed to either the spatial separation of the four homologous chromosomes in some premeiotic cells into two groups of two, or a correction of the synaptonemal complex, or both. The number of chiasmate associations showed variation between chromosomes and between arms within the same chromosome. It was closely related to arm length, but different after quadrivalent and bivalent pairing. This is suggested to be a consequence of partner exchange interfering with pairing and, consequently, with chiasma formation, and a different chiasma distribution after quadrivalent pairing. Variation between chromosomes in the frequencies of alternate and adjacent co-orientation in metaphase I quadrivalents without interstitial chiasmata suggests that the relative positions of the centromeres in the quadrivalent influence their co-orientation.     

鹅观草属——人工合成双二倍体(2n=10x=70)的细胞学及育性的研究

本文对缘毛鹅观草(Roegneria pendulina)、鹅观草(R.tsukushiensis var.transiens)及其人工合成杂种F_1、双二倍体进行了细胞学,育性等的分析和研究。结果表明双亲的减数分裂,花粉育性和结实性均正常,杂种F_1的减数分裂不规则且完全不育;当代双二倍体的染色体数目为70,其减数分裂构型为:6.04 Ⅰ+26.21 Ⅱ+1.52 Ⅲ+1.59 Ⅳ+0.02 Ⅴ:第二代双二倍体的染色体数目为70,个别植株为69,减数分裂构型分别为:4.16 Ⅰ+27.33 Ⅱ+0.50 Ⅲ+2.16 Ⅳ和4.79 Ⅰ26.26 Ⅱ+1.13 Ⅲ+2.13 Ⅳ。与期望染色体配对模式相比,双二倍体中二价体出现的频率有明显增大的趋势。在减数分裂AⅠ和AⅡ分别观察到数目不定的落后单价体,大部份的四分体中出现了微核。双二倍体的育性得到了很大程度的恢复,其花粉可染色性及结实率分别为54.4％和64.0％。     

Utilization of wild relatives in the genetic improvement of Arachis hypogaea L.

Summary Synthetic amphidiploids were established in 32 combinations involving 8 diploid wild species representing both A and B genomes of section Arachis. Bivalent and multivalent associations in the amphidiploids of 7 A genome species confirm that these species have identical genomes. Contrastingly, high bivalent frequencies in amphidiploids involving the A and B genome species suggest that A. batizocoi has a distinct B genome that is partially homologous to the other genome A represented in the rest of the species. Crossability, chromosome pairing and pollen and pod fertility in hybrids between A. hypogaea and amphidiploids have revealed that these amphidiploids can be used as a genetic bridge for the transfer of genes from the wild species into the cultivated groundnut.Submitted as Journal Article No. 530 by International Crops Research Institute for the Semi-Arid Tropics (ICRISAT)