Identification and characterisation of an RPD3 homologue from maize (Zea mays L.) that is able to complement an rpd3 null mutant of Saccharomycescerevisiae

In mammals, yeast and Drosophila, the histone deacetylase RPD3 proteins can alter the expression of genes involved in fundamental biological processes by affecting the degree of acetylation of histones and changing chromatin structure. Here we report the isolation of a cDNA sequence encoding an RPD3 homologue from maize, which is able to complement the phenotype of an rpd3 null mutant of the yeast Saccharomyces cerevisiae. The expression of the corresponding gene(s) was assessed in different maize tissues. The number of homologous loci was estimated by Southern hybridisation to be in the range of two to three, and the chromosomal location of one of these loci was determined. Phylogenetic analysis and tests for relative divergence rates, using related RPD3 sequences from different species, were performed, and suggest that different polymorphic forms of RPD3-like proteins that evolve at distinct rates are present in the species considered.     

Examination of the Intron in the meiosis-specific recombination gene REC114 in Saccharomyces

REC114 is one of 10 genes known to be required for the initiation of meiotic recombination in Saccharomyces cerevisiae. It is transcribed only in meiosis, and our previous sequence analysis suggested the presence of an intron in the 3′ end of the gene. Hypotheses in the literature have suggested, because of its unusual location, either that the putative intron in REC114 is likely to be necessary for expression, or that there may actually be no intron present. This work demonstrates that REC114 does have an intron and is one of only three genes in yeast with introns located in the 3′ end. Furthermore, the 3′ splice site utilized in REC114 is a very rare AAG sequence; only three other genes in yeast use this nonconsensus sequence. The splicing of REC114 does not require MER1, a gene known to be involved in meiosis-specific RNA processing. In fact, an intronless copy of REC114 can complement a null rec114 mutation. Thus, it does not appear that the intron is essential for expression of REC114. Although the intron is not absolutely required for meiotic function, it is conserved in evolution; two other species of yeast contain an intron at the same location in their REC114 genes. Received: 16 October 1996 / Accepted: 10 February 1997     

Cloning and expression analyses of AtMRP4 , a novel MRP -like gene from Arabidopsis thaliana

In all organisms glutathione-conjugate transporters (GS-X pumps) mediate the detoxification of a number of xenobiotics by removing them from the cytosol. In addition, GS-X pumps appear to play a role in the processing of endogenous compounds. We have isolated a novel genomic clone from Arabidopsis thaliana that encodes a putative GS-X pump, AtMRP4, which is part of a recently defined gene family. The derived amino acid sequence shares high levels of similarity (55–63%) with human, yeast, and other Arabidopsis homologues. The expression of the different members of the AtMRP gene family in Arabidopsis cell suspensions after treatment with chemicals that modify glutathione metabolism (compounds that induce different types of stress and that act as herbicide antidotes – safeners – in monocotyledonous species) revealed that the members of this gene family are differentially regulated. Received: 20 February 1998 / Accepted: 9 March 1998     

Preferential mutagenesis of lacZ integrated at unique sites in the Escherichia coli chromosome

To study the variation in spontaneous mutation frequencies in different chromosomal domains, a mini-Mu-kan-lacZ ⁻transposable element was constructed to insert the lacZ ⁻(Trp570 → Opal) allele into many different loci in the Escherichia coli chromosome. Papillation on MacConkey lactose plates was used to screen for mini-Mu insertion mutants with elevated levels of spontaneous mutagenesis of lacZop → LacZ⁺ candidates were then screened for normal mutation frequencies in other genes. Two different insertion mutants with this enhanced mutagenesis phenotype were isolated from 14 000 colonies, and named plm-1 (preferential lacZmutagenesis) and plm-2. The frequency of LacZ⁻→ LacZ⁺ mutations in these plm mutants was over 400-fold higher than that in isogenic strains containing mini-Mu-kan-lacZop insertions at other loci. Six Lac⁺ reversion (or suppression) mutations obtained from each of the two plm mutants were mapped by P1 transduction and all were found to be linked to the Kan^r gene in the mini-Mu-kan-lacZop, suggesting that a localized mutagenic event is responsible for the preferential mutagenesis. Furthermore, both the LacZ⁺→ LacZ⁻and Kan^r→ Kan^s mutant frequencies of these Lac⁺ revertants were in the range of 10⁻³ to 10⁻², indicating that this putative localized mutagenesis is neither allele nor gene specific. To identify the plm loci, the chromosomal regions flanking the mini-Mu insertion sites were cloned and sequenced. A computer-assisted database search of homologous sequences revealed that the plm-1 locus is identical to the mutS gene; the mini-Mu insertion most probably results in the production of a truncated MutS protein. We suggest that the enhanced lacZ mutation frequency in plm-1 may be associated with an active process involving the putative truncated MutS protein. The DNA sequence of the plm-2 locus matched a putative malate oxidoreductase gene located at 55.5 min of the E. coli chromosome. Received: 1 August 1996 / Accepted: 3 April 1997     

Rice has two distinct classes of protein kinase genes related to SNF1 of Saccharomyces cerevisiae , which are differently regulated in early seed development

We have isolated five cDNA clones (osk1–5) for protein kinases from rice which are related to SNF1 protein kinase of Saccharomyces cerevisiae. Based on the sequence homology, these cDNAs can be classified into two groups, group 1 (osk1) and group 2 (osk2–5). The products of these genes were demonstrated to be functional SNF1-related protein kinases by in vitro and in vivo experiments. Recombinant proteins expressed from both groups of genes were fully active as protein kinases and could phosphorylate SAMS peptide, a substrate specific for the SNF1/AMPK family, as well as themselves (autophosphorylation). Moreover, expression of osk3 cDNA in yeast snf1 mutants restored SNF1 function. Northern blot analyses showed differential expression of these two gene groups; group 1 is expressed uniformly in growing tissues (young roots, young shoots, flowers, and immature seeds), whereas group 2 is strongly expressed in immature seeds. SNF1-related protein kinases have been reported from different plant species, such as rye, barley, Arabidopsis, tobacco, and potato, while the type of gene strongly expressed in immature seeds is known only in cereals such as rye, barley, and, from our findings, in rice. Expression levels of the group 2 genes were further analyzed in seeds during seed maturation. Expression is transiently increased in the early stages of seed maturation and then decreases. The expression peak precedes those of the sbe1 and waxy genes, which are involved in starch synthesis in rice. Taken together, these findings suggest that group 2 OSK genes play important roles in the early stages of endosperm development in rice seeds. Received: 30 April 1998 / Accepted: 20 August 1998     

转cry1Ab/cry2Aj和G10evo-epsps基因玉米中Bt蛋白的时空表达及抗性评价

【目的】探讨转cry1Ab/cry2Aj和G10evo-epsps基因玉米双抗505-12-5中外源Bt蛋白时空表达规律,对3种主要鳞翅目害虫亚洲玉米螟、黏虫和棉铃虫的抗性进行鉴定,为转基因玉米双抗505-12-5的商业化推广提供科学的数据支撑。【方法】Bt蛋白时空表达规律采用酶联免疫法(ELISA),田间抗虫性和室内抗虫性鉴定分别采用田间人工接虫和离体组织生测方法。【结果】在玉米6~8叶期,Bt含量表现为根心叶茎,分别为517.3、453.8和312.8 ng·g~(-1);大喇叭口期,Bt含量表现为心叶根茎,分别为353.3、281.3和232.9 ng·g~(-1);吐丝期,Bt含量表现为心叶根茎,分别为188.9、114.1和53.6 ng·g~(-1);乳熟期,根、茎和心叶含量相当,分别为178.0、160.3和185.4 ng·g~(-1);繁殖器官中Bt蛋白含量表现为籽粒花丝花粉雄穗,分别为181.3、100.1、95.0和79.8 ng·g~(-1)。室内抗虫性鉴定表明,转基因玉米双抗505-12-5心叶饲喂黏虫24 h,幼虫死亡率低,但48 h后达98.21%;双抗505-12-5心叶、花丝和籽粒饲喂玉米螟,24 h幼虫死亡率分别为87.37%、100%、100%;双抗505-12-5花丝饲喂棉铃虫,24 h幼虫死亡率达80.18%,48 h死亡率为92.45%。田间鉴定结果显示,转基因玉米双抗505-12-5在心叶期和雌穗期对玉米螟、心叶期对黏虫、雌穗期对棉铃虫的抗性均达高抗水平。【结论】转基因玉米双抗505-12-5各器官在不同生育期中均能表达Bt蛋白,尤其在鳞翅目害虫为害的主要时期6~8叶期和吐丝期及乳熟期,易受害器官中Bt蛋白表达量较高。转基因玉米双抗505-12-5田间及室内对3种鳞翅目害虫均表现了显著的抗性效果,具有推广应用的潜力。     

Isolation and characterisation of an aryl-β-D-glucoside uptake and utilisation system ( abg ) from the gram-positive ruminal Clostridium species C. longisporum

A phosphotransferase-dependent aryl-β-glucoside uptake and utilisation system (abg) was isolated from the ruminal Clostridium (“C. longisporum”). The system is composed of three genes, abgG, abgF and abgA, and a number of regulatory regions, including terminator/antiterminator type stem-loop structures preceding the abgG and abgF genes. Similarity analysis of the proteins encoded by these genes indicated that they were responsible for the regulation of the abg system through antitermination (AbgG), the uptake and phosphorylation of aryl-β-glucosides (AbgF) and the hydrolysis of the intracellular phosphorylated glycosides (AbgA). Experimental evidence for the functions of AbgF and AbgA was obtained. Although it was not possible to demonstrate any function for AbgG, a promoter 5′ to the abgG gene was identified which was responsible for expression of the downstream genes. The abg system is remarkably similar to operons from the gram negative Enterobacteriaceae, both in the coding and non-coding regulatory regions. Received: 3 April 1997 / Accepted: 8 September 1997     

The Saccharomyces cerevisiae genes ( CMP1 and CMP2 ) encoding calmodulin-binding proteins homologous to the catalytic subunit of mammalian protein phosphatase 2B

Summary Saccharomyces cerevisiae genomic clones that encode calmodulin-binding proteins were isolated by screening a λgt11 expression library using¹²⁵I-labeled calmodulin as probe. Among the cloned yeast genes, we found two closely related genes (CMP1 andCMP2) that encode proteins homologous to the catalytic subunit of phosphoprotein phosphatase. The presumed CMP1 protein (62999 Da) and CMP2 protein (68496 Da) contain a 23 amino acid sequence very similar to those identified as calmodulin-binding sites in many calmodulin-regulated proteins. The yeast genes encode proteins especially homologous to the catalytic subunit of mammalian phosphoprotein phosphatase type 213 (calcineurin). The products of theCMP1 andCMP2 genes were identified by immunoblot analysis of cell extracts as proteins of 62000 and 64000 Da, respectively. Gene disruption experiments demonstrated that elimination of either or both of these genes had no effect on cell viability, indicating that these genes are not essential for normal cell growth.     

The b-32 protein from maize endosperm, an albumin regulated by the O2 locus: Nucleic acid (cDNA) and amino acid sequences

Summary The cDNA coding for the b-32 protein, an albumin expressed in maize endosperm cells under the control of the O2 and O6 loci, has been cloned and the complete amino acid sequence of the protein derived. A lambda gt11 cDNA library from mRNA of immature maize endosperm was screened for the expression of the b-32 protein using antibodies against the purified protein. One of the positive clones obtained was used to isolate a full-length cDNA clone. By Northern analysis, the size of the b-32 mRNA was estimated to be 1.2 kb. Hybrid-selected translation assays show that the message codes for a protein with an apparent molecular weight of 30–35 kDa. The nucleotide sequence shows that several internal repeats are present. The protein has a length of 303 amino acid residues (mol. wt. 32430 dalton) and its sequence shows the following features: no signal peptide is observable; it contains seven tryptophan residues, an amino acid absent in maize storage proteins; polar and hydrophobic residues are spread along the sequence; several pairs of basic residues are present in the N-terminal region; the secondary structure allows the prediction of two structural domains for the b-32 protein that would fold up giving rise to a globular shape. The cloning of this gene may help in understanding the role of the O2 and O6 loci in regulating the deposition of zein, the major storage protein of maize endosperm.     

The yeast gene MSH3 defines a new class of eukaryotic MutS homologues

We have identified a gene in Saccharomyces cerevisiae, MSH3, whose predicted protein product shares extensive sequence similarity with bacterial proteins involved in DNA mismatch repair as well as with the predicted protein product of the Rep-3 gene of mouse. MSH3 was obtained by performing a polymerase chain reaction on yeast genomic DNA using degenerate oligonucleotide primers designed to anneal with the most conserved regions of a gene that would be homologous to Rep-3 and Salmonella typhimurium mutS. MSH3 seems to play some role in DNA mismatch repair, inasmuch as its inactivation results in an increase in reversion rates of two different mutations and also causes an increase in postmeiotic segregation. However, the effect of MSH3 disruption on reversion rates and postmeiotic segregation appears to be much less than that of previously characterized yeast DNA mismatch repair genes. Alignment of the MSH3 sequence with all of the known MutS homologues suggests that its primary function may be different from the role of MutS in repair of replication errors. MSH3 appears to be more closely related to the mouse Rep-3 gene and other similar eukaryotic mutS homologues than to the yeast gene MSH2 and other mutS homologues that are involved in replication repair. We suggest that the primary function of MSH3 may be more closely related to one of the other known functions of mutS, such as its role in preventing recombination between non-identical sequences.     

Isolation of an extragenic suppressor of the rna1-1 mutation in Saccharomyces cerevisiae

The small GTPase Ran is essential for nucleocytoplasmic transport of macromolecules. In the yeast Saccharomyces cerevisiae, Rna1p functions as a Ran-GTPase activating protein (RanGAP1). Strains carrying the rna1-1 mutation exhibit defects in nuclear transport and, as a consequence, accumulate precursor tRNAs. We have isolated two recessive suppressors of the rna1-1 mutation. Further characterization of one of the suppressor mutations, srn10-1, reveals that the mutation (i) can not bypass the need for Rna1p function and (ii) suppresses the accumulation of unspliced pre-tRNA caused by rna1-1. The SRN10 gene is not essential for cell viability and encodes an acidic protein (pI = 5.27) of 24.8 kDa. Srn10p is located in the cytoplasm, as determined by indirect immunofluorescence microscopy. Two-hybrid analysis reveals that there is a physical interaction between Srn10p and Rna1p in vivo. Our results identify a protein that interacts with the yeast RanGAP1. Received: 2 March 1998 / Accepted: 17 June 1998     

Cloning and characterization of PhPI9 involved in floral development from Phalaenopsis Orchid

In the attempt to discover new genes involved in the floral development in monocotyledonousin species, we have cloned and characterized the homologous PISTALLATA-like (PI-like) gene from Phalaenopsis hybrid cultivar named PhPI9 (Ph alaenopsis PI STILLATA # 9). The cDNA of PhPI9 has a fragment of 834 bp and has 60% identity with the PISTILATA from Arabidopsis. The deduced amino acid sequence of PhPI9 had the typical PI-motif. It also formed a subclade with other monocot PI-type genes in phylogenetic analysis. Southern analysis showed that PhPI9 was present in the Phalaenopsis orchid genome as a single copy. Furthermore, it was expressed only in the lip of the Phalaenopsis flower and no expression was detected in vegetative organs. Thus, as a B-function MADS-box gene, PhPI9 specifies floral organ identity in orchids. __________ Translated from Journal of Fudan University (Natural Science), 2006, 45(3): 277–282 [译自: 复旦学报(自然科学版)]     

Aluminum-sensitive mutants of Saccharomyces cerevisiae

We are developing budding yeast, Saccharomyces cerevisiae, as a genetic system for the study of tolerance to the trivalent aluminum cation (Al³⁺). We have isolated eight mutants that are more sensitive to Al³⁺ than the wild type. Each mutant represented a different complementation group. A number of the mutants were pleiotropic, and showed defects in other stress responses, changes in tolerance to other metal cations, or abnormal morphology. Two mutants also showed increased dependence on supplemental Mg²⁺ and Ca²⁺. One mutant with a relatively specific sensitivity to Al³⁺ was chosen for molecular complementation. Normal Al³⁺ tolerance was restored by expression of the MAP kinase gene SLT2. Strains carrying deletions of the SLT2 gene, or of the gene for the corresponding MAP kinase–kinase SLK1, showed sensitivity to Al³⁺. These results indicate that the SLT2 MAP kinase signal transduction pathway is required for yeast to sense and respond to Al³⁺ stress. Received: 17 April 1996 / Accepted: 21 October 1996     

Biotechnological strains of Komagataella (Pichia) pastoris are Komagataellaphaffii as determined from multigene sequence analysis

Pichia pastoris was reassigned earlier to the genus Komagataella following phylogenetic analysis of gene sequences. Since that time, two additional species of Komagataella have been described, K. pseudopastoris and K. phaffii. Because these three species are unlikely to be resolved from the standard fermentation and growth tests used in yeast taxonomy, the identity of biotechnologically important strains of K. pastoris was determined from multigene sequence analyses. Results from this study show that the strain of ‘Pichia pastoris’ commonly used in gene expression studies is actually K. phaffii.     

Genetic diversity of six populations of Atractomorpha sinensis and Atractomorpha peregrina in Shanxi Province, China

Ten enzymes (AAT, CK, G3PDH, HEX, IDH, LDH, MDH, ME, PGI, PGM) were examined using horizontal starch gel electrophoresis to estimate the levels of genetic variation within and among six natural populations of two grasshopper species Atractomorpha sinensis and A. peregrina from Shanxi, China. The collecting sites were geographically distant from each other from south to north: Quwo district, Linfen city; Xiangyuan county, Changzhi; Jinyuan district, Taiyuan city; Yuanping county, Xinzhou city and Fanshi county of Xinzhou.A. sinensis showed 43 alleles at 16 loci but A. peregrine showed 39 alleles at 15 loci (Idh-1 was deficient). The zymograms showed that some common alleles were shared at several loci in these two species (Aat-1-b, Aat-2-b, G3pdh-a, Ck-1-b and Ldh-b). However, Hex-1-a, Hex-2-a, Hex-3-a, Idh-2-b, Mdh-2-b, Mdh-1-f, Pgi-b, Pgm-b had common alles in A. sinensis and Hex-1-b, Hex-2-b, Hex-3-b, Idh-2-a, Mdh-2-a, Mdh-1-d, Pgi-a, Pgm-c were of high frequency in A. peregrine instead. Most of the observed genotype frequencies were found to significantly deviate from the Hardy-Weinberg expectations in both species. A tendency of clinal distribution of allele frequency was observed at three loci. The frequency of the moderately migrating allele Me-c (0.318–0.740) in A. peregrina, Hex-1-a (0.800–1.000) and Ldh-b (0.487–0.750) in A. sinensis demonstrated increased frequency from north to south. Such tendency suggests that the allele frequency in these three loci may be correlated with the species’ geographic distributions. A. sinensis showed higher genetic diversity than A. peregrina as indicated by higher mean number of alleles per locus (A = 1.9–2.3 in A. sinensis and 1.7–2.2 in A. peregrina), percentage of polymorphic loci (56.3%–68.8% in A. sinensis and 43.8%–56.3% in A. peregrina), and the observed heterozygosities (H _o = 0.072–0.096 in A. sinensis and 0.70–0.107 in A. peregrina). The observed heterozygosities of the six populations were all noticeably lower than the Hardy-Weinberg expectations, mostly due to heterozygote deficiency in the populations of both species. The overall mean F _ST were small (F _ST = 0.045, P > 0.05 in A. sinensis populations and 0.087, P > 0.05 in A. peregrina populations). Nei’s genetic identity (I) estimates indicate low intraspecific (>0.95) but higher interspecific (0.377–0.447) genetic diversity. The cluster analysis based on modified Roger’s genetic distance (D) showed that the two species were divided into two branches. Both species are of limited dispersal capacity and a moderate geographical barrier might significantly restrict the gene exchange among populations, resulting in accumulation of local genetic differentiations. The A. sinensis populations used in this study were separated from each other by 155.2 to 271.4 km and the A. peregrina populations were separated from each other by 78.8 to 174.9 km with observable physical barriers. The allozyme data showed only minimal genetic differentiation at population level, most likely as a result of gene exchange. It is reasoned that natural factors and human agricultural activities might have facilitated migration and dispersal for the two species. __________ Translated from Acta Ecologica Sinica, 2005, 25(10): 2574–2481 [译自: 生态学报]