1. Effects of Embedding 2. Experiments with Modifications

Paraffin embedding was found to be satisfactory for brain stained by a modification of the Golgi dichromate-silver method. Nitrocellulose embedding caused fading in a few specimens. Several modifications in which the tissue was impregnated with silver nitrate before treating it with potassium dichromate were investigated. The following one is recommended. Fix pieces of brain 5-6 mm. thick for 2 days in: silver nitrate;0.5%, 90 ml.; formalin, comml. unneutralized (37-40% gas), 10 ml.; pyridine, pure, 0.05-0.1 ml. Mix in the order given and test for pH with brom cresol purple. A pH of 5.5-6.0 is about optimum and the amount of pyridine added can be varied to adjust it. A slight turbidity of the fixing fluid may be disregarded, but precipitation indicates too much alkalinity. Rinse the tissues with distilled water and place them in a mixture of potassium dichromate, 2.5%, 100 ml. and osmic acid, 1%, 1 ml., for 3-5 days. Wash in water, dehydrate with alcohol and embed in soft paraffin for thick sectioning. Greater intensity of staining (but with an increase in precipitate) can be secured by rinsing the blocks after the dichromate treatment and resilvering in a 0.5% solution of silver nitrate for a day or two, then washing, dehydrating and embedding. This modification of the Golgi method was worked out on brain of adult rat, guinea pig, cat and monkey. Results with fetal material were not good. All solutions used were aqueous, and staining was done at room temperature.     

PCR-RFLP assays to distinguish the Western and Eastern phylogroups in wild and cultured tench Tinca tinca

The tench Tinca tinca is a valued table fish native to Europe and Asia, but which is now widely distributed in many temperate freshwater regions of the world as the result of human-mediated translocations. Fish are currently being transplanted between watersheds without concern for genetic similarity to wild populations or local adaptation, and efficient phylogeographic markers are therefore urgently needed to rapidly distinguish genetically distinct geographical populations and to assess their contribution to the hatchery breeds and to the stocked wild populations. Here, we present a new method to distinguish recently discovered and morphologically undistinguishable Western and Eastern phylogroups of the tench. The method relies on PCR-RFLP assays of two independent nuclear-encoded exon-primed intron-crossing (EPIC) markers and of one mitochondrial DNA (mDNA) marker and allows the rapid identification of the Western and Eastern phylogroup and also of three geographical mtDNA clades within the Eastern phylogroup. Our method will enable researchers and fishery practitioners to rapidly distinguish genetically divergent geographical populations of the tench and will be useful for monitoring the introduction and human-mediated spread of the phylogroups in wild populations, for characterization of cultured strains and in breeding experiments.     

苜蓿种质间染色体多态性的荧光原位杂交检测

利用染色体荧光原位杂交技术(FISH),将3种重复序列5S rDNA、45S rDNA和C0t-1 DNA用不同荧光物进行标记,对我国10个不同地理来源的苜蓿种质(Medicago sativa L.;2n=4X=32)进行了染色体多态性检测。结果表明,利用以上重复序列可以较好地将苜蓿32条染色体区分为16对特征不同的染色体,10份不同种质材料FISH带纹特征表现高度相似,比较不同种质间同源染色体重复序列杂交特征,揭示出种质群体内和群体间多态性染色体的存在,其中不同的同源染色体多态性表现不尽一致,1号染色体(随体染色体)多态性最高,10份材料中检出7个多态型,3、4、15号染色体保守性较强,在不同种质间表现为单态,其他染色体多态性居中。对在地理分布上自西向东的10个材料进行染色体多态性比较,结果显示分布于西藏、新疆以及分布在辽宁的材料部分染色体多态型显著区别于其他材料。     

应用引物原位标记技术检测21号染色体

应用原位引物标记技术（PRINS）检测了21号染色体着丝粒,在外周血和绒毛细胞的标记效率分别为91％和93％,实验过程可以在2h之内完成,证明这一检测方法是一种快速、灵敏、特异性良好的染色体数目检测方法,有可能用于21号染色体数目异常的快速诊断。     

Mapping QTLs conferring early blight (Alternaria solani) resistance in a Lycopersicon esculentum×L. hirsutum cross by selective genotyping

Most commercial cultivars of tomato, Lycopersicon esculentum Mill., are susceptible to early blight (EB), a devastating fungal (Alternaria solani Sorauer) disease of tomato in the U.S. and elsewhere in the world. Currently, sanitation, long crop rotation, and routine application of fungicides are the most common disease control measures. Although no source of genetic resistance is known within the cultivated species of tomato, resistant resources have been identified within related wild species. The purpose of this study was to identify and validate quantitative trait loci (QTLs) conferring EB resistance in an accession (PI126445) of the tomato wild species L. hirsutum Humb. and Bonpl. by using a selective genotyping approach. A total of 820 BC₁ plants of a cross between an EB susceptible tomato breeding line (NC84173; maternal and recurrent parent) and PI126445 were grown in a greenhouse. During late seedling stage, plants were inoculated with mixed isolates of A. solani and subsequently evaluated for EB symptoms. The most resistant (75 plants = 9.1%) and most susceptible (80 = 9.8%) plants were selected and subsequently transplanted into a field where natural infestation of EB was severe. Plants were grown to maturity and evaluated for final disease severity. From among the 75 resistant plants, 46 (5.6% of the total) that exhibited the highest resistance, and from among the 80 susceptible plants, 30 (3.7% of the total) that exhibited the highest susceptibility, were selected. The 76 selected plants, representing the two extreme tails of the response distribution, were genotyped for 145 restriction fragment length polymorphism (RFLP) markers and 34 resistance gene analogs (RGAs). A genetic linkage map, spanning approximately 1298 cM of the 12 tomato chromosomes with an average marker distance of 7.3 cM, was constructed. A trait-based marker analysis (TBA), which measures differences in marker allele frequencies between extreme tails of a population, detected seven QTLs for EB resistance, one on each of chromosomes 3, 4, 5, 6, 8, 10 and 11. Of these, all but the QTL on chromosome 3 were contributed from the resistant wild parent, PI126445. The standardized effects of the QTLs ranged from 0.45 to 0.81 phenotypic standard deviations. Four of the seven QTLs were previously identified in a study where different populations and mapping strategy were used. The high level of correspondence between the two studies indicated the reliability of the detected QTLs and their potential use for marker-assisted breeding for EB resistance. The location of several RGAs coincided with locations of EB QTLs or known tomato resistance genes (R genes), suggesting that these RGAs could be associated with disease resistance. Furthermore, similar to that for many R gene families, several RGA loci were identified in clusters, suggesting their potential evolutionary relationship with R genes.     

Solanum lycopersicoides gene introgression to tomato,Lycopersicon esculentum,through the systematic avoidance and suppression of breeding barriers

Summary While Lycopersicon esculentum and Solanum lycopersicoides have been successfully hybridized, attempts at further direct gene introgression have been unsuccessful due to the presence of incompatibility barriers. A systematic study of the initial hybridization and subsequent backcrosses has identified multiple barriers to introgression. These barriers are expressed as pollen tube inhibition in the upper style and lower pistil, and failures in syngamy, zygote development, and sporogenesis. Upper style cross-incompatibility barriers were successfully avoided by bud pollinations using a stigma complementation procedure to allow pollen germination on otherwise unreceptive stigmas. The inhibition of pollen tube growth was observed in the lower pistil. A combination of environmental, plant, and genetic manipulations facilitated consistent pollen tube growth to the ovule micropyles in all crosses attempted. Failures at syngamy and early zygote formation proved to be the most difficult barriers to overcome — these were particularly severe in crosses to F₁ hybrid plants. Progeny were obtained in all crossing combinations attempted except in the initial hybridization with S. lycopersicoides as the pistillate parent. Although the strong pre-zygotic barriers were overcome in this cross, further progress was restricted by post-zygotic failures. The capability to overcome pre-zygotic barriers and to excise and culture very young embryos has allowed plantlet recovery from male sterile F₁ plants. Partially pollen-fertile F₁ plants were recovered when relatively large F₁ populations were generated from different _{S. lycopersicoides accessions}. In general, barriers to introgression diminished with increased backcrossing, though exceptions were noted. Progeny from the second backcross to L. esculentum possessed adequate fertility to set self-seed under field conditions. Although all backcross progeny were developed from only a few F₁ individuals, considerable genetic variability was recovered for fruit and vegetative characteristics. Potentially useful levels of disease resistance, particularly to Botrytis cinerea, were also recovered.     

Cytogenetical studies in the bridge cross Allium cepa× (A. fistulosum×A. roylei)

  Allium fistulosum harbours a number of desirable agronomical traits for the breeding of onions. However exploitation of A. fistulosum for onion breeding via direct sexual hybridization is problematic. Therefore, we examined if a bridge cross, using A. roylei as a bridging species, might provide an alternative. By means of genomic in situ hybridization (GISH) we showed that each of the three parental genomes can be distinguished from the others in interspecific hybrids, suggesting that these genomes contain sufficiently different repetitive DNA families. We succeeded in carrying out multi-colour GISH to metaphase spreads of a first-generation bridge-cross individual [A. cepa× (A. fistulosum×A. roylei], which is composed of three parental genomes. Recombination between the genomes of A. fistulosum and A. roylei took place to a large extent: 7 recombined chromosomes were observed, and it could be shown that the proximal regions of the recombined A. fistulosum/A. roylei chromosomes belonged to the former, whereas the distal parts belonged to the latter. The high percentage of bound bivalent arms in metaphase I of pollen mother cells of a fertile bridge-cross individual suggests the introgression of A. fistulosum genes, mediated by A. roylei, into the genome of A. cepa. However, the presence of univalents reflects decreased pairing and recombination between the three genomes. Pollen fertility and pollen-tube growth of the first-generation bridge-cross individual seem to be sufficient to produce a second generation bridge-cross (A. cepa×first-generation bridge cross) progeny. Received: 27 May 1997 / Accepted: 30 June 1997     

A repressor element in the 5'-untranslated region of human Pax5 exon 1A

Five members of the RecQ helicase family, RECQL, WRN, BLM, RTS and RECQL5, have been found in human and three of them (WRN, BLM and RTS) were disclosed to be the genes responsible for Werner, Bloom and Rothmund–Thomson syndromes, respectively. RECQL5 (RecQ helicase protein-like 5) was isolated as the fifth member of the family in humans through a search of homologous expressed sequence tags. The gene is expressed with at least three alternative splicing products, , β and γ. Here, we isolated mouse RECQL5β and determined the DNA sequence of full-length cDNA as well as the genome organization and chromosome locus. The mouse RECQL5β gene consists of 2949 bp coding 982 amino acid residues. Comparison of amino acid sequence among human (Homo sapiens), mouse (Mus musculus), Drosophila melanogaster and Caenorhabditis elegans RECQL5β homologs revealed three portions of highly conserved regions in addition to the helicase domain. Nineteen exons are dispersed over 40 kbp in the genome and all of the acceptor and donor sites for the splicing of each exon conform to the GT/AG rule. The gene is localized to the mouse chromosome 11E2, which has a syntenic relation to human 17q25.2-q25.3 where human RECQL5β exists. Our genetic characterizations of the mouse RECQL5β gene will contribute to functional studies on the RECQL5β products.     

Parallel speciation in Astyanax cave fish (Teleostei) in Northern Mexico

We investigated differentiation processes in the Neotropical fish Astyanax that represents a model system for examining adaptation to caves, including regressive evolution. In particular, we analyzed microsatellite and mitochondrial data of seven cave and seven surface populations from Mexico to test whether the evolution of the cave fish represents a case of parallel evolution. Our data revealed that Astyanax invaded northern Mexico across the Trans-Mexican Volcanic Belt at least three times and that populations of all three invasions adapted to subterranean habitats. Significant differentiation was found between the cave and surface populations. We did not observe gene flow between the strongly eye and pigment reduced old cave populations (Sabinos, Tinaja, Pachon) and the surface fish, even when syntopically occurring like in Yerbaniz cave. Little gene flow, if any, was found between cave populations, which are variable in eye and pigmentation (Micos, Chica, Caballo Moro caves), and surface fish. This suggests that the variability is due to their more recent origin rather than to hybridization. Finally, admixture of the young Chica cave fish population with nuclear markers from older cave fish demonstrates that gene flow between populations that independently colonized caves occurs. Thus, all criteria of parallel speciation are fulfilled. Moreover, the microsatellite data provide evidence that two co-occurring groups with small sunken eyes and externally visible eyes, respectively, differentiated within the partly lightened Caballo Moro karst window cave and might represent an example for incipient sympatric speciation.     

Can Codon Usage Bias Explain Intron Phase Distributions and Exon Symmetry?

More introns exist between codons (phase 0) than between the first and the second bases (phase 1) or between the second and the third base (phase 2) within the codon. Many explanations have been suggested for this excess of phase 0. It has, for example, been argued to reflect an ancient utility for introns in separating exons that code for separate protein modules. There may, however, be a simple, alternative explanation. Introns typically require, for correct splicing, particular nucleotides immediately 5 in exons (typically a G) and immediately 3 in the following exon (also often a G). Introns therefore tend to be found between particular nucleotide pairs (e.g., G|G pairs) in the coding sequence. If, owing to bias in usage of different codons, these pairs are especially common at phase 0, then intron phase biases may have a trivial explanation. Here we take codon usage frequencies for a variety of eukaryotes and use these to generate random sequences. We then ask about the phase of putative intron insertion sites. Importantly, in all simulated data sets intron phase distribution is biased in favor of phase 0. In many cases the bias is of the magnitude observed in real data and can be attributed to codon usage bias. It is also known that exons may carry either the same phase (symmetric) or different phases (asymmetric) at the opposite ends. We simulated a distribution of different types of exons using frequencies of introns observed in real genes assuming random combination of intron phases at the opposite sides of exons. Surprisingly the simulated pattern was quite similar to that observed. In the simulants we typically observe a prevalence of symmetric exons carrying phase 0 at both ends, which is common for eukaryotic genes. However, at least in some species, the extent of the bias in favor of symmetric (0,0) exons is not as great in simulants as in real genes. These results emphasize the need to construct a biologically relevant null model of successful intron insertion.Reviewing Editor: Dr. Manyuan Long     

Optimization of PRINS and C-PRINS for detection of telomeric sequences in Vicia faba

Primed in situ labelling (PRINS) of nucleic acids was developed as an alternative to traditionally used fluorescence in situ hybridization (FISH). Compared to FISH, PRINS is faster and does not require preparation of labelled probes. Nevertheless, the number of applications for physical mapping of DNA sequences on plant chromosomes remains low. This is due to the fact that there are a number of factors which influence the specificity and sensitivity of the reaction. The purpose of this work was to analyse the effect of some of them, including the age of slides, type of Taq DNA polymerase, number and concentration of primers, the presence and concentration of bovine serum albumine and MgCl₂ in the reaction mixture. Furthermore, the effect of various pre-treatments on signal intensity and non-specific fluorescence was studied. A consensus Arabidopsis-type telomeric sequence and Vicia faba mitotic chromosomes were used as a model system. We have found that the age of slides was critical and that under optimal conditions it was possible to achieve relatively high signal to noise ratio. This revised version was published online in July 2006 with corrections to the Cover Date.     

斑点杂交检测对虾白斑综合征病毒青岛株在螯虾体内的动态分布

近年来 ,我国学者对人工养殖对虾暴发性病毒病的病原进行了较为系统的研究[1～ 5] ,本试验应用螯虾这一动物模型[6] ,利用斑点杂交方法 ,研究了白斑综合征病毒 (ＷＳＳＶ ,前称无包埋体对虾病毒Ｎｏｎ -Ｏｃｃｌｕｄｅｄ -ＳｈｒｉｍｐＶｉｒｕｓＮＯＳＶ )青岛株在螯虾体内的动态分布 ,为研究该病毒的传播途径、增殖致病机理提供了参考。1　材料与方法1.1　实验动物克氏原螯虾 (Ｃａｍｂａｒｕｓｐｒｏｃｌａｒｋｉｉ ,以下简称螯虾 ) 40尾 ,购自南京某农贸市场 ,实验室饲养一周以上 ,健康存活。1.2　种毒处理及接种白斑综合征病毒青岛株 (…