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PubMed1988

B-mode ultrasound observations of bull testes during breeding soundness examinations.

The testes of 78 adult Beefmaster bulls (13 to > 31 mo old) were scanned with a 5 MHz, linear array portable ultrasound unit during routine breeding soundness examinations. Videotape recordings were used to measure mediastinum testis width and fluid width between visceral and parietal tunics (fluid width), and to count the number of fibrotic foci. Ultrasound results were compared to breeding soundness score parameters, which included total score, age classification, and percentage of primary and secondary sperm abnormalities. The overall mean mediastinum testis width and fluid width were 0.33 cm +/- 0.133 and 0.10 cm +/- 0.13, respectively; 15 testes had 1-8 fibrotic foci. There were no significant differences in mediastinum testis width and fluid width between left and right testes when compared by breeding soundness score classification or by age classification. There were no significant differences in mediastinum testis width, fluid width, breeding soundness score, or primary or secondary sperm abnormalities in bulls with fibrotic foci compared to bulls without fibrotic foci. There appears to be no significant information that routine testicular ultrasound examination adds to accepted breeding soundness evaluations performed on the same day.

Journal Article↗
PubMed2026

Herbicide Resistance Genes in Crops: Mechanisms, Progress, and Future Perspectives.

While previous reviews have largely focused on individual crops or single target-site mechanisms, the full-chain comparative landscape across major cereal crops remains unexplored. Here, we fill this critical gap by providing the first systematic, cross-crop comparative review that spans herbicide targets, resistance mechanisms, and breeding applications across four major cereals-rice, maize, wheat, and sorghum. Weed infestation is a serious constraint on crop production. Chemical weed control faces challenges such as herbicide resistance evolution and ecological risks. Developing herbicide-resistant varieties is a fundamental approach to achieve green and sustainable weed management. This review systematically summarizes research progress on herbicide resistance genes from three aspects: herbicide classification, resistance mechanisms, and crop breeding applications. It highlights key differences among four major cereal crops (rice, maize, wheat, and sorghum) in resistance-gene discovery and translational progress. Rice has the richest target-site resistance-gene resources. Maize leads in commercialization of transgenic herbicide resistance. Wheat focuses on endogenous precise editing due to genome complexity and regulatory constraints. Sorghum relies on specific mutations to serve cereal-legume intercropping systems. Based on this comparison, this review identifies the core trends in resistance breeding: from single-gene to multi-gene stacking, and from exogenous gene introduction to endogenous gene editing. It also points out common bottlenecks, including insufficient systematic mining of resistance-gene resources, lagging elucidation of non-target-site resistance regulatory networks, and strong genotype dependence in genetic transformation. Future efforts should focus on exploring broad-spectrum resistance genes, optimizing precise editing technologies, and developing sustainable resistance management strategies. This review provides a theoretical framework and practical references for molecular breeding of herbicide-resistant crops.

crop breeding↗
PubMed2003

[Ecological surveillance on breeding ground for Oncomelania hupensis snails in the areas prevalent with islet-type schistosomiasis using remote sensing technology].

OBJECTIVE: To probe rational indices suitable for ecological surveillance on breeding ground for Oncomelania hupensis snails in areas prevalent with islet-type schisitosomiasis using remote sensing technology. METHODS: Three adjacent islets, prevalent with islet-type schistosomiasis, along the Yangtze River within the boundaries of Dongzhi County, Anhui Province were selected as study field for remote sensing analysis. Multi-spectral data were composed and non-supervisedly classified in computer with Idisi software for remote sensing analysis. Values of the normalized difference vegetation index (NDVI), green vegetation index (GVI), bright index (BI), which reflect the greenness and brightness of landscape, were also calculated. Finally, all the results were comprehensively analyzed, combined with data from the field investigation. RESULTS: NDVI, GVI and BI could depict characteristics of the landscape quantitatively. Values of NDVI, BI and GVI were varied in different types of landscapes, and 95% confidence interval of these values suitable for breeding of snails was 0.0522 approximately 0.3566, 2.4162 approximately 28.2672 and 29.3404 approximately 40.3135, respectively. Classification of NDVI showed that type 5 anf type 6 were main breeding ground for snails, and type 4 with values of NDVI from 0 to 0.1 was potential areas for snail propagation. Classification of GVI showed that types 5, 6 and 7 were main breeding ground for snails, and also type 4 with values of GVI from 2 to 10 was potential areas for snail propagation. Both NDVI and GVI showed type 2 and type 3 were temporarily not suitable for snail breeding. CONCLUSION: Index figures of NDVI and GVI re-formed by reasonable classification could reflect not only breeding ground for snails and range of the areas for snail propagation in islets, but also their evolving rules, i.e., status of new marshland formation and vegetation growth.

Animals↗
PubMed1996

Variation in intervertebral disc serine proteinase inhibitory proteins with ageing in a chondrodystrophoid (beagle) and a non-chondrodystrophoid (greyhound) canine breed.

Intervertebral disc (IVD) proteoglycans (PGs) and trypsin inhibitory protein levels were assessed for groups of beagles and greyhounds aged between 4 and 80 months. A significant age-dependent decline in PGs and in trypsin inhibitory protein levels was evident in extracts of the beagle nucleus pulposus (NP). This was confirmed for the semi-purified trypsin inhibitor, using Western blotting. These age changes, however, were not evident in the greyhound NP. Furthermore, no significant ageing trends in PG or trypsin inhibitory protein levels were evident in extracts of the annulus fibrosus of either animal. The early onset of IVD degeneration in the beagle, a canine breed of the chondrodystrophoid (achondroplastic) classification, may be related to this decline in the anti-catabolic effects of the endogenous serine proteinase inhibitory proteins.

Aging↗
PubMed2002

Evaluation of factors affecting individual assignment precision using microsatellite data from horse breeds and simulated breed crosses.

Assignment tests have been utilized to investigate population classification, measure genetic diversity and to solve forensic questions. Using microsatellite data from 26 loci genotyped in eight horse breeds we examined how population differentiation, number of scored loci, number of scored animals per breed and loci variability affected individual assignment precision applying log likelihood methods. We found that both genetic differentiation and number of scored loci were highly important for recognizing the breed of origin. When comparing two and two breeds, a proportion of 95% of the most differentiated breeds (0.200 < or = FST < or = 0.259) could be identified scoring only three loci, while the corresponding number was six for the least differentiated breeds (0.080 < or = FST < or = 0.139). An identical proportion of simulated breed crosses, differentiated from their parental breeds by FST estimates in the range 0.050-0.069, was identified when scoring 12 loci. This level of source identification was not obtained for the less differentiated breed crosses. The current data further suggested that population sample size and locus variability were not critical for the assignment precision as long as moderately large sample sizes (> or = 20 animals per population) and fairly variable loci were used.

Animals↗
PubMed1998

Genetic relationships among Spanish sheep using microsatellites.

Five indigenous Spanish breeds of sheep, Churra, Latxa, Manchega, Rasa-Aragonesa and Merino, with Awassi sheep as a reference breed were genotyped for 19 DNA microsatellites. Allele frequencies and mean heterozygosities revealed the greatest genetic variation in Merino sheep and the lowest in Awassis. Differences in variability were not great in the other breeds studied. The dendrograms obtained based on genetic distances showed a large differentiation between Awassi sheep and the Spanish breeds, as was to be expected from their distinct genetic origin. Merinos appeared separated from the other four breeds, of which, according to a classification based on the fleece characteristics, Churra and Latxa belong to the churro type and Manchega and Rasa-Aragonesa to the so called entrefino type, though no clear separation was evident between the two types. These results suggest that morphological data alone are insufficient for determining relationships between breeds and that studies involving genetic markers may be of great assistance.

Alleles↗
PubMed2004

Genetic diversity within Pisum sativum using protein- and PCR-based markers.

A collection of 148 Pisum accessions, mostly from Western Europe, and including both primitive germplasm and cultivated types, was structured using 121 protein- and PCR-based markers. This molecular marker-based classification allowed us to trace back major lineages of pea breeding in Western Europe over the last decades, and to follow the main breeding objectives: increase of seed weight, introduction of the afila foliage type and white flowers, and improvement of frost tolerance for winter-sown peas. The classification was largely consistent with the available pedigree data, and clearly resolved the different main varietal types according to their end-uses (fodder, food and feed peas) from exotic types and wild forms. Fodder types were further separated into two sub-groups. Feed peas, corresponding to either spring-sown or winter-sown types, were also separated, with two apparently different gene pools for winter-sown peas. The garden pea group was the most difficult to structure, probably due to a continuum in breeding of feed peas from garden types. The classification also stressed the paradox between the narrowness of the genetic basis of recent cultivars and the very large diversity available within P. sativum. A sub-collection of 43 accessions representing 96% of the whole allelic variability is proposed as a starting point for the construction of a core collection.

Agriculture↗
PubMed2005

A new image of plantain diversity assessed by SSR, AFLP and MSAP markers.

Using both SSR and AFLP markers, the genetic diversity of 30 plantains constituting a representative sample of the phenotypic diversity was assessed. The results confirmed a very narrow genetic base of this cultivar group. SSR and AFLP data support the hypothesis that these cultivars may have arisen from vegetative multiplication of a single seed. MSAP were used to survey cytosine methylation status at CCGG sites in order to obtain an alternative source of diversity data. A higher degree of polymorphism was revealed allowing the classification of the samples into three clusters. No correlation was observed between the phenotypic classification and methylation diversity. Implications for breeding programs are discussed.

DNA Methylation↗
PubMed1996

An attempt on using the method of R-Q double-factor analysis to identify and group fusants.

A subsequent numeric taxonomy method for identifying and grouping the fusants was explored on the basis of characterization of the protein profiles of the fusants. By these two means, several typical excellent candidates of recombinants could be searched out quickly. Among the fusants from a definite fusion-cross, the different sister-strains were regarded as the samples of observation (n = N), the positions of the all bands of protein profiles as the objects (p = P), and the photometer-scanning area of the specific band as the experimental value (X) (zero was taken when the specific band of a certain strain was absent). The genetic multirelationships among the inter- and intra-sister-strains in terms of the positions and contents of the protein bands after fusion recombination occurred from this definite fusion-cross could therefore be determined on the same orientational factor-plate by using the computer program of the R-Q double-factor method to analyze this data matrix (Xnxp). These sister-strains could then be identified and grouped from the deduced heredity relationship between the fusants and parents.

Aspergillus niger↗
PubMed1998

Characterization and detection of Anopheles vestitipennis and Anopheles punctimacula (Diptera: Culicidae) larval habitats in Belize with field survey and SPOT satellite imagery.

Surveys of larval habitats of Anopheles vestitipennis and Anopheles punctimacula were conducted in Belize, Central America. Habitat analysis and classification resulted in delineation of eight habitat types defined by dominant life forms and hydrology. Percent cover of tall dense macrophytes, shrubs, open water, and pH were significantly different between sites with and without An. vestitipennis. For An. punctimacula, percent cover of tall dense macrophytes, trees, detritus, open water, and water depth were significantly different between larvae positive and negative sites. The discriminant function for An. vestitipennis correctly predicted the presence of larvae in 65% of sites and correctly predicted the absence of larvae in 88% of sites. The discriminant function for An. punctimacula correctly predicted 81% of sites for the presence of larvae and 45% for the absence of larvae. Canonical discriminant analysis of the three groups of habitats (An. vestitipennis positive; An. punctimacula positive; all negative) confirmed that while larval habitats of An. punctimacula are clustered in the tree dominated area, larval habitats of An. vestitipennis were found in both tree dominated and tall dense macrophyte dominated environments. The forest larval habitats of An. vestitipennis and An. punctimacula seem to be randomly distributed among different forest types. Both species tend to occur in denser forests with more detritus, shallower water, and slightly higher pH. Classification of dry season (February) SPOT multispectral satellite imagery produced 10 land cover types with the swamp forest and tall dense marsh classes being of particular interest. The accuracy assessment showed that commission errors for the tall, dense marsh and swamp forest appeared to be minor; but omission errors were significant, especially for the swamp forest (perhaps because no swamp forests are flooded in February). This means that where the classification indicates there are An. vestitipennis breeding sites, they probably do exist; but breeding sites in many locations are not identified and could be more abundant than indicated.

Animals↗
PubMed2001

Threshold model for misclassified binary responses with applications to animal breeding.

A Bayesian procedure for misclassified binary data was developed. An animal breeding simulation indicated that, when error of classification was ignored, the variance between clusters was inferred incorrectly. Data were reanalyzed assuming that the probability of misclassification was either known or unknown. In the first case, input parameter values were recovered in the analysis. When the probability was unknown, there was a slight bias; the true probability of misclassification and the true number of miscoded observations appeared within high credibility regions. An analysis of fertility in dairy cows is presented.

Animals↗
PubMed1999

Genetic diversity of Chinese native pigs inferred from protein electrophoresis.

We examined protein polymorphism of 20 native pig breeds in China and 3 introduced pig breeds. Thirty loci have been investigated, among which six loci were found to be polymorphic. Especially, the polymorphism of malate dehydrogenase (MDH), adenylate kinase (AK), and two new alleles of adenosine deaminase (ADA) had not been reported in domestic pigs and wild pigs. The percentage of polymorphic loci (P), the mean heterozygosity (H), and the mean number of alleles (A) are 0.200, 0.065, and 1.300, respectively. The degree of genetic variability of Chinese pigs as a whole was higher than that of goats, lower than that of cattle and horses, and similar to that of sheep. Using the gene frequencies of the 30 loci, Nei's genetic distance among the 20 native breeds in China and 3 introduced pig breeds was calculated by the formula of Nei. The program NEIGHBOR in PHYLIP 3.5c was chosen to construct an UPGMA tree and a NJ tree. Our results show that, of the total genetic variation found in the native pig breeds in China, 31% (0.31) is ascribable to genetic differences among breeds. About 69% of the total genetic variation is found within breeds. Most breeds are in linkage disequilibrium. The patterns of genetic similarities between the Chinese native pig breeds were not in agreement with the proposed pig type classification.

Adenosine Deaminase↗
PubMed2001

Global relationships amongst black-browed and grey-headed albatrosses: analysis of population structure using mitochondrial DNA and microsatellites.

The population structure of black-browed (Thalassarche melanophris and T. impavida) and grey-headed (T. chrysostoma) albatrosses was examined using both mitochondrial DNA (mtDNA) and microsatellite analyses. mtDNA sequences from 73 black-browed and 50 grey-headed albatrosses were obtained from five island groups in the Southern Ocean. High levels of sequence divergence were found in both taxa (0.55-7.20% in black-browed albatrosses and 2.10-3.90% in grey-headed albatrosses). Black-browed albatrosses form three distinct groups: Falklands, Diego Ramirez/South Georgia/Kerguelen, and Campbell Island (T. impavida). T. melanophris from Campbell Island contain birds from each of the three groups, indicating high levels of mixture and hybridization. In contrast, grey-headed albatrosses form one globally panmictic population. Microsatellite analyses on a larger number of samples using seven highly variable markers found similar population structure to the mtDNA analyses in both black-browed and grey-headed albatrosses. Differences in population structure between these two very similar and closely related species could be the result of differences in foraging and dispersal patterns. Breeding black-browed albatrosses forage mainly over continental shelves and migrate to similar areas when not breeding. Grey-headed albatrosses forage mainly at frontal systems, travelling widely across oceanic habitats outside the breeding season. Genetic analyses support the current classification of T. impavida as being distinct from T. melanophris, but would also suggest splitting T. melanophris into two groups: Falkland Islands, and Diego Ramirez/South Georgia/Kerguelen.

Animals↗
PubMed2002

Clustering of Environments of Southern Soft Red Winter Wheat Region for Milling and Baking Quality Attributes.

Division of regional nursery test sites into homogenous subregions contributes to more efficient evaluation and better differentiation of cultivars. Data from the Uniform Southern Soft Red Winter Wheat Nursery (USSRWWN) were analyzed to group testing sites into relatively homogenous subregions for milling and baking quality (MBQ) attributes. Environmental effects due to years accounted for over 50% of the total variation for protein content (P) and 42% for alkaline water retention capacity (AWRC). Genotype effect accounted for 63% of the total variation for softness equivalence (SE), and 37% for flour yield (FLY). A significant genotype x location (GxL) interaction occurred for FLY and P. However, the GxL variance component accounted for a small proportion of the total phenotypic variance, suggesting that clustering would be more beneficial for resource efficiency than for increasing differentiation of genotypes. A hierarchical cluster analysis was used to group locations on the basis of GxL interaction effects for FLY, P, AWRC, and SE. Cluster analysis divided the USSRWWN into two main subregions within which the GxL interaction was reduced by over 90% for FLY and by 60% for P. Although this classification is not entirely consistent with the geographic distribution of locations, clusters do follow general geographic-climatic-disease regions. Our results suggest that the USSR-WWN can be divided into subregions to reduce the resources expended on evaluation of MBQ attributes. This classification of locations could be useful in breeding for specific adaptability within subregions.

Journal Article↗