Deployment to plantations of numbers and proportions of clones with special emphasis on maximizing gain at a constant diversity

Summary The value of a mixture of genetic entries present in different proportions is defined. A measure of the disadvantage of reduced diversity is defined as the sum of the squares of the proportions of the different entries. An algorithm for maximizing genetic gain of the mixture under the constraint of a constant disadvantage is developed. The optimal deployment strategy is one that lets the proportion of the genetic entries be linearly dependent on their genetic value. By use of rankits as entries for genetic values, optimal solutions for deployment were calculated for a range of values of available entries (from 10 to 5,000) and preset diversity-related disadvantage-factors (the preset values correspond to mixtures of between 2 and 100 entries in identical proportions). The values are tabulated so they can be used by breeders. The superiority of the proposed strategy increases with the proportion of the available entries which are selected. In the situation that around half would have been selected if truncation selection was applied, the improvement in genetic gain compared to classical truncation selection is up to 18%. Thus, considerable improvements in gain are possible without any sacrifice in diversity. Applications are discussed with particular reference to clonal forestry.     

Analysis of covariance with pre-treatment measurements in randomized trials: comparison of equal and unequal slopes

In randomized trials, an analysis of covariance (ANCOVA) is often used to analyze post-treatment measurements with pre-treatment measurements as a covariate to compare two treatment groups. Random allocation guarantees only equal variances of pre-treatment measurements. We hence consider data with unequal covariances and variances of post-treatment measurements without assuming normality. Recently, we showed that the actual type I error rate of the usual ANCOVA assuming equal slopes and equal residual variances is asymptotically at a nominal level under equal sample sizes, and that of the ANCOVA with unequal variances is asymptotically at a nominal level, even under unequal sample sizes. In this paper, we investigated the asymptotic properties of the ANCOVA with unequal slopes for such data. The estimators of the treatment effect at the observed mean are identical between equal and unequal variance assumptions, and these are asymptotically normal estimators for the treatment effect at the true mean. However, the variances of these estimators based on standard formulas are biased, and the actual type I error rates are not at a nominal level, irrespective of variance assumptions. In equal sample sizes, the efficiency of the usual ANCOVA assuming equal slopes and equal variances is asymptotically the same as those of the ANCOVA with unequal slopes and higher than that of the ANCOVA with equal slopes and unequal variances. Therefore, the use of the usual ANCOVA is appropriate in equal sample sizes.     

Nonparametric comparison for panel count data with unequal observation processes

This article considers nonparametric comparison of several treatment groups based on panel count data, which often occur in, among others, medical follow-up studies and reliability experiments concerning recurrent events. For the problem, most of the existing procedures require that observation processes are identical across different treatment groups among other requirements. We propose a new class of nonparametric test procedures that allow different observation processes. The new test statistics are constructed based on the integrated weighted differences between the estimated mean functions of the underlying recurrent event processes. The asymptotic distributions of the proposed test statistics are established and their finite-sample properties are examined through Monte Carlo simulations, which indicate that the proposed approach works well for practical situations. An illustrative example is provided.     

Minimize the use of minimization with unequal allocation

Summary Minimization as an alternative to randomization is gaining popularity for small clinical trials. In response to critics’ questions about the proper analysis of such a trial, proponents have argued that a rerandomization approach, akin to a permutation test with conventional randomization, can be used. However, they add that this computationally intensive approach is not necessary because its results are very similar to those of a t ‐test or test of proportions unless the sample size is very small. We show that minimization applied with unequal allocation causes problems that challenge this conventional wisdom.     

Prediction of additive and dominance effects in selected or unselected populations with inbreeding

Summary A genetic model with either 64 or 1,600 unlinked biallelic loci and complete dominance was used to study prediction of additive and dominance effects in selected or unselected populations with inbreeding. For each locus the initial frequency of the favourable allele was 0.2, 0.5, or 0.8 in different alternatives, while the initial narrow-sense heritability was fixed at 0.30. A population of size 40 (20 males and 20 females) was simulated 1,000 times for five generations. In each generation 5 males and 10 or 20 females were mated, with each mating producing four or two offspring, respectively. Breeding individuals were selected randomly, on own phenotypic performance or such yielding increased inbreeding levels in subsequent generations. A statistical model containing individual additive and dominance effects but ignoring changes in mean and genetic covariances associated with dominance due to inbreeding resulted in significantly biased predictions of both effects in generations with inbreeding. Bias, assessed as the average difference between predicted and simulated genetic effects in each generation, increased almost linearly with the inbreeding coefficient. In a second statistical model the average effect of inbreeding on the mean was accounted for by a regression of phenotypic value on the inbreeding coefficient. The total dominance effect of an individual in that case was the sum of the average effect of inbreeding and an individual effect of dominance. Despite a high mean inbreeding coefficient (up to 0.35), predictions of additive and dominance effects obtained with this model were empirically unbiased for each initial frequency in the absence of selection and 64 unlinked loci. With phenotypic selection of 5 males and only 10 females in each generation and 64 loci, however, predictions of additive and dominance effects were significantly biased. Observed biases disappeared with 1,600 loci for allelic frequencies at 0.2 and 0.5. Bias was due to a considerable change in allelic frequency with phenotypic selection. Ignoring both the covariance between additive and dominance effects with inbreeding and the change in dominance variance due to inbreeding did not significantly bias prediction of additive and dominance effects in selected or unselected populations with inbreeding.     

Isolation and characterization of pLS 1 plasmid mutants with increased copy numbers

Abstract Streptococcus pneumoniae genetic systems designed for isolation of plasmid mutants with copy-up phenotypes have been developed. The target plasmids have the pLS1 replicon, and two different strategies have been followed: (i) selection of clones exhibiting augmented resistance to antibiotics, or (ii) obligatory co-existence of incompatible plasmids. We have isolated 23 plasmid mutants exhibiting increased number of copies. All the mutations corresponded to four different alleles of the copG gene of plasmid pLS1. These strategies could be used with other plasmids.     

多囊卵巢综合征患者阴道微生态变化及其与性激素水平的关系

目的探讨多囊卵巢综合征(PCOS)患者阴道微生态变化及其与性激素水平的关系。方法将2018年7月-2019年7月我院生殖健康与不孕症科收治的132例PCOS患者作为研究组,选择同期在我院进行妇科体检的86例健康女性作为对照组。16S rRNA法和定量PCR反应检测阴道分泌物微生态情况,放射免疫法测定血清中睾酮(T)、卵泡刺激素(FSH)、黄体生成素(LH)、雌二醇(E2)、孕酮(P)、催乳素(PRL)水平,分析微生态变化与性激素水平的关系。结果研究组患者阴道分泌物清洁度Ⅳ度检出率,滴虫、假丝酵母菌及线索细胞阳性检出率,阴道微生态失调率,血清T、LH、E2及PRL水平均高于对照组(P0.05),研究组患者血清FSH、P水平低于对照组(P0.05)。阴道微生态失调患者血清中E2水平高于阴道微生态正常患者,P水平低于阴道微生态正常患者(P0.05)。结论 PCOS患者存在阴道微生态失衡,阴道微生态的变化与血清性激素水平存在相关性,考虑激素水平的变化可能参与阴道微生态失调的发生。     

糖尿病大鼠性腺及外周血中性激素的改变

目的:研究糖尿病大鼠性腺及外周血中性激素的变化。方法:用放射免疫法检测糖尿病(DM)大鼠,正常(NDM)大鼠和STZ大鼠血清性激素含量,同时称取性腺重量,镜检睾丸、前列腺及附睾的组织形态学改变。结果:DM组睾酮水平显著低于NDM组、STZ组(P<0.01);NDM组与STZ组之间,睾酮水平无显著性差异;DM组促黄体生成素(LH)水平显著高于NDM组、STZ组(P<0.01);NDM组与STZ组之间。LH水平无显著性差异;促卵泡刺激素(FSH)水平在各组之间无显著性差异;HE结果显示,DM组性腺显微结构较NDM组及STZ组明显改变。结论:提示DM严重影响大鼠性腺功能及睾酮的合成分泌,并显著降低大鼠血清睾酮含量。     

Prenatal hormones and childhood sex segregation: playmate and play style preferences in girls with congenital adrenal hyperplasia

We investigated playmate and play style preference in children with congenital adrenal hyperplasia (CAH) (26 females, 31 males) and their unaffected siblings (26 females, 17 males) using the Playmate and Play Style Preferences Structured Interview (PPPSI). Both unaffected boys and girls preferred same-sex playmates and sex-typical play styles. In the conflict condition where children chose between a same-sex playmate engaged in an other-sex activity or an other-sex playmate engaged in a same-sex activity, boys (both CAH and unaffected brothers) almost exclusively chose playmates based on the preferred play style of the playmate as opposed to the preferred gender label of the playmate. By contrast, unaffected girls used play style and gender label about equally when choosing playmates. Girls with CAH showed a pattern similar to that of boys: their playmate selections were more masculine than unaffected girls, they preferred a boy-typical play style and, in the conflict condition, chose playmates engaged in a masculine activity. These findings suggest that prenatal androgen exposure contributes to sex differences in playmate selection observed in typically developing children and that, among boys and girls exposed to high levels of androgens prenatally, play style preferences drive sex segregation in play.     

A note on the island model with sex dependent migration

Summary A theoretical calculation is presented which extends Wright's island model of drift and migration to differential migration between the two sexes. In this circumstance, local demes no longer have Hardy-Weinberg frequencies. There may be local heterozygote excess or deficiency depending, respectively, on whether migration occurs before or after mating. The magnitude of the local departure from Hardy-Weinberg is directly proportional to the difference between the migration parameters of the two sexes. These results could have important implications for studies where genetic markers are used for inferring population structure. An example from a study of Marmot colonies is cited.     

On the impact of sex and birth order on contact with kin

Previous research indicates that birth order is a strong predictor of familial sentiments, with middleborns less family-oriented than first- or last-borns. In this research, effects of sex and birth order on the actual frequency of contact with maternal and paternal kin were examined in two studies. In Study 1, one hundred and forty undergraduates completed a questionnaire relating to the amount of time they spent in contact with specific relatives, while in Study 2, one hundred and twelve undergraduates completed the same questionnaire with the addition of two questions relating to the subjects’ parents’ birth orders. Subjects were more likely to have frequent contact with maternal, as opposed to paternal, kin and women experienced more frequent contact than men with relatives in general. The birth order of subjects did not appear to have a significant influence on contact but the birth order of the subjects’ parents did, with the offspring of middleborn mothers having relatively little contact with maternal grandparents and the offspring of middleborn fathers having relatively little contact with paternal grandparents. These sex and birth order differences are discussed in relation to possible differences in how women and men use kinship ties and in terms of how birth order may influence parental solicitude. Catherine Salmon recently received her Ph.D. in psychology from McMaster University in Hamilton Ontario. Her interest in kinship and family relationships has grown out of her own large extended family and many visits to Utah as well as exposure to evolutionary thinking about the family in the lab of Martin Daly and Margo Wilson. Her other current research interests focus on female sexuality and the evolutionary study of literature.     

Variably male-biased sex ratio in a marine bird with females larger than males

When the costs of rearing males and females differ progeny sex ratios are expected to be biased toward the less expensive sex. Blue-footed booby (Sula nebouxii) females are larger and roughly 32% heavier than males, thus presumably more costly to rear. We recorded hatching and fledging sex ratios in 1989, and fledging sex ratios during the next 5 years. In 1989, the sample of 751 chicks showed male bias at hatching (56%) and at fledging (57% at ˜90 days). Fledging sex ratios during the five subsequent reproductive seasons were at unity (1 year) or male-biased, varying from 56% to 70%. Male bias was greater during years when mean sea surface temperature was warmer and food was presumably in short supply. During two warm-water years (only) fledging sex ratio varied with hatching date. Proportions of male fledglings increased with date from 0.48 to 0.73 in 1994, and from 0.33 to 0.79 in 1995. Similar results were obtained when the analysis was repeated using only broods with no nestling mortality, suggesting that the overall increase in the proportion of males over the season was the result of sex ratio adjustments at hatching. The male-biased sex ratio, and the increased male bias during poor breeding conditions supports the idea that daughters may be more costly than sons, and that their relative cost increases in poor conditions. Received: 3 February 1998 / Accepted: 12 September 1998     

A fish with no sex: gonadal and adrenal functions partition between zebrafish NR5A1 co-orthologs

People with NR5A1 mutations experience testicular dysgenesis, ovotestes, or adrenal insufficiency, but we do not completely understand the origin of this phenotypic diversity. NR5A1 is expressed in gonadal soma precursor cells before expression of the sex-determining gene SRY. Many fish have two co-orthologs of NR5A1 that likely partitioned ancestral gene subfunctions between them. To explore ancestral roles of NR5A1, we knocked out nr5a1a and nr5a1b in zebrafish. Single-cell RNA-seq identified nr5a1a-expressing cells that co-expressed genes for steroid biosynthesis and the chemokine receptor Cxcl12a in 1-day postfertilization (dpf) embryos, as does the mammalian adrenal–gonadal (interrenal-gonadal) primordium. In 2dpf embryos, nr5a1a was expressed stronger in the interrenal-gonadal primordium than in the early hypothalamus but nr5a1b showed the reverse. Adult Leydig cells expressed both ohnologs and granulosa cells expressed nr5a1a stronger than nr5a1b. Mutants for nr5a1a lacked the interrenal, formed incompletely differentiated testes, had no Leydig cells, and grew far larger than normal fish. Mutants for nr5a1b formed a disorganized interrenal and their gonads completely disappeared. All homozygous mutant genotypes lacked secondary sex characteristics, including male breeding tubercles and female sex papillae, and had exceedingly low levels of estradiol, 11-ketotestosterone, and cortisol. RNA-seq showed that at 21dpf, some animals were developing as females and others were not, independent of nr5a1 genotype. By 35dpf, all mutant genotypes greatly under-expressed ovary-biased genes. Because adult nr5a1a mutants form gonads but lack an interrenal and conversely, adult nr5a1b mutants lack a gonad but have an interrenal, the adrenal, and gonadal functions of the ancestral nr5a1 gene partitioned between ohnologs after the teleost genome duplication, likely owing to reciprocal loss of ancestral tissue-specific regulatory elements. Identifying such elements could provide hints to otherwise unexplained cases of Differences in Sex Development.     

Identification of key genes and pathways associated with sex difference in osteoarthritis based on bioinformatics analysis

Objectives:The present study aimed to identify different key genes and pathways between postmenopausal females and males by studying differentially expressed genes (DEGs).Methods:{"type":"entrez-geo","attrs":{"text":"GSE32317","term_id":"32317"}}GSE32317 and {"type":"entrez-geo","attrs":{"text":"GSE55457","term_id":"55457"}}GSE55457 gene expression data were downloaded from the GEO database, and DEGs were discovered using R software to obtain overlapping DEGs. The interaction between overlapping DEGs was further analyzed by establishing the protein-protein interaction (PPI) network. Finally, GO and KEGG were used for enrichment analysis.Results:924 overlapping DEGs between postmenopausal women and men with osteoarthritis (OA) were identified, including 674 up-regulated genes and 249 down-regulated ones. And 10 hub genes were identified in the PPI network, including BMP4, KDM6A, JMJD1C, NFATC1, PRKX, SRF, ZFX, LAMTOR5, UFD1L and AMBN. The findings of the functional enrichment analysis suggested that these genes were predominantly expressed in MAPK signaling pathway as well as the Thyroid hormone signaling pathway, indicating that those two pathways may be involved in onset and disease progression of OA in postmenopausal patients.Conclusion:BMP4, KDM6A, JMJD1C, PRKX, ZFX and LAMTOR5 are expected to play crucial roles in disease development in postmenopausal patients and may be ideal targets or prognostic markers for the treatment of OA.