Application of unmanned aerial systems for high throughput phenotyping of large wheat breeding nurseries

Background

Low cost unmanned aerial systems (UAS) have great potential for rapid proximal measurements of plants in agriculture. In the context of plant breeding and genetics, current approaches for phenotyping a large number of breeding lines under field conditions require substantial investments in time, cost, and labor. For field-based high-throughput phenotyping (HTP), UAS platforms can provide high-resolution measurements for small plot research, while enabling the rapid assessment of tens-of-thousands of field plots. The objective of this study was to complete a baseline assessment of the utility of UAS in assessment field trials as commonly implemented in wheat breeding programs. We developed a semi-automated image-processing pipeline to extract plot level data from UAS imagery. The image dataset was processed using a photogrammetric pipeline based on image orientation and radiometric calibration to produce orthomosaic images. We also examined the relationships between vegetation indices (VIs) extracted from high spatial resolution multispectral imagery collected with two different UAS systems (eBee Ag carrying MultiSpec 4C camera, and IRIS+ quadcopter carrying modified NIR Canon S100) and ground truth spectral data from hand-held spectroradiometer.

Results

We found good correlation between the VIs obtained from UAS platforms and ground-truth measurements and observed high broad-sense heritability for VIs. We determined radiometric calibration methods developed for satellite imagery significantly improved the precision of VIs from the UAS. We observed VIs extracted from calibrated images of Canon S100 had a significantly higher correlation to the spectroradiometer (r = 0.76) than VIs from the MultiSpec 4C camera (r = 0.64). Their correlation to spectroradiometer readings was as high as or higher than repeated measurements with the spectroradiometer per se.

Conclusion

The approaches described here for UAS imaging and extraction of proximal sensing data enable collection of HTP measurements on the scale and with the precision needed for powerful selection tools in plant breeding. Low-cost UAS platforms have great potential for use as a selection tool in plant breeding programs. In the scope of tools development, the pipeline developed in this study can be effectively employed for other UAS and also other crops planted in breeding nurseries.

     

Validation of a new dental plaque quantification method in dogs

Current methods for the quantification of plaque accumulation in cats and dogs are well-accepted adaptations of traditional human models, but have required substantial modifications in order to compensate for the inherent differences in compliance, cooperation, and temperament between animals and humans. While these modifications have sought to maintain or improve upon the accuracy and reproducibility of the original methods, they also have increased the complexity of the technique and have required additional scorer time and animal cooperation, which leads to increased cost of trials. Therefore, research was directed toward the development and validation of a new substrate scoring system that reduces resources while maintaining or increasing the reproducibility attributed to the more traditional methods. This new gingival contour plaque index was shown to be accurate and reproducible, but used fewer animals, required less time, and eliminated the need for many of the specialized procedures required by traditional methods.     

ULTRASOUND AS AN AID FOR DIAGNOSIS OF OVARIAN ABSCESSES IN TWO MARES

This report describes two mares presented for evaluation of anorexia, fever of unknown origin, and weight loss. Clinical examination, laboratory findings, and transrectal ultrasonographic images suggested ovarian abscessation. One mare was successfully treated medically. Because of financial considerations, the second mare was euthanatized and a postmortem examination was performed. At necropsy, there was an enlarged right ovary with an adhesion to the large colon. Microscopic findings were characteristic of an ovarian abscess.     

Pulmonary Thromboembolism in 29 Dogs: 1985–1995

Pulmonary thromboembolism (PTE) occurs as a complication to a number of commonly encountered clinical diseases. Antemortem recognition of this life-threatening disorder is hampered by nonspecificity of clinical signs. This retrospective study was performed to analyze clinical features, laboratory findings, imaging abnormalities, and concurrent postmortem diagnoses in 29 dogs with confirmed pulmonary embolism. A variety of clinicopathologic and radiographic abnormalities were noted but there were no pathognomonic findings for PTE. Arterial blood gas analyses were performed in 15 (52%) of 29 dogs; 12 (80%) of 15 exhibited hypoxemia and 15 (100%) of 15 had increased alveolar-arterial oxygen gradients. Response to supplemental O2 was variable and did not correlate with the presence or absence of additional pulmonary pathology on postmortem. At postmortem, 25 (86%) of 29 dogs had grossly visible emboli, 17 (59%) of 29 dogs had multiple disease processes, and 16 (55%) of 29 dogs had additional pulmonary pathology. PTE was suspected antemortem in 11 (38%) of 29 dogs. In dogs with respiratory signs consistent with PTE, the condition was a differential diagnosis in 11 of 17 animals; all had diseases previously reported to be associated with PTE. Neoplasia, systemic bacterial disease, and immune-mediated hemolytic anemia were diagnosed most frequently.     

Influence of harvest date on seed yield and quality in forage kochia

Forage kochia (Bassia prostrata) is used for rangeland reclamation and livestock and wildlife forage, but limited research has been conducted on its seed production. Therefore, this research evaluated the effect of harvest date on seed weight, germination, and seed yield of forage kochia subspecies virescens and grisea. Seed was harvested from individual plants for 3 years during October, November, and December. October harvest had the lightest 100-seed weights, with the November harvest slightly heavier than December, for most accessions. Cultivar Snowstorm and breeding line Sahsel, both subsp. grisea, had the greatest 100-seed weights in November, 155 and 143 mg, respectively, whereas, cv. Immigrant (subsp. virescens), the standard for forage kochia, ranked among the least for 100-seed weight. For most accessions, germination was lowest from the October harvest (11%–43%), with greater germination with November and December harvested seeds (43%–64%). Viable seed yields were greatest in November with the exception of two accessions, which peaked in October, indicating earlier maturity. Results indicate that forage kochia usually reaches optimum seed maturity by early November, after plants are exposed to freezing temperatures; however, earlier maturing accessions exist in both subspecies virescens and grisea.     

Habitat analysis of the commercial tuna of the Eastern Tropical Pacific Ocean

We have extracted information on the habitats of bigeye (Thunnus obesus), skipjack (Katsuwonus pelamis) and yellowfin (Thunnus albacares) in the Eastern Tropical Pacific Ocean by matching the spatial‐temporal distribution of catch and effort of purse seine and longline fleets collected by the Inter‐American Tropical Tuna Commission with oceanographic conditions and subjecting the matched data to Quotient Analysis and General Additive Models (GAMs). These analyses yielded the following results. The habitats defined by the GAM analysis of young fish differ significantly between two periods, one before and one after the introduction of fish aggregation devices (FADs). This was not true for the older fish caught by longline. We speculate that these changes were caused by the extensive use of FADs. Younger bigeye and yellowfin caught by the purse seine fleet have a different preference of environmental variables compared to older fish caught by longline. This is to be expected since tuna of different age groups have different sizes, metabolic capabilities and swimming skills. Moreover, as revealed by GAMs, the habitats of young fish differ between species to a much larger degree than those of older fish. Our results indicate the fundamental differences between fishing methods, targeted species, and operating region of the two fisheries. Specifically, young bigeye occupy equatorial waters farther from the coast and where the hypoxic layer is deeper, young skipjack occupy more productive waters associated with equatorial and coastal upwelling, and young yellowfin occupy broad areas where waters are underlain by a shallow hypoxic layer.