Integrated meta-analysis and transcriptomics pinpoint genomic loci and novel candidate genes associated with submergence tolerance in rice

BACKGROUND

Due to rising costs, water shortages, and labour shortages, farmers across the globe now prefer a direct seeding approach. However, submergence stress remains a major bottleneck limiting the success of this approach in rice cultivation. The merger of accumulated rice genetic resources provides an opportunity to detect key genomic loci and candidate genes that influence the flooding tolerance of rice.

RESULTS

In the present study, a whole-genome meta-analysis was conducted on 120 quantitative trait loci (QTL) obtained from 16 independent QTL studies reported from 2004 to 2023. These QTL were confined to 18 meta-QTL (MQTL), and ten MQTL were successfully validated by independent genome-wide association studies from diverse natural populations. The mean confidence interval (CI) of the identified MQTL was 3.44 times narrower than the mean CI of the initial QTL. Moreover, four core MQTL loci with genetic distance less than 2 cM were obtained. By combining differentially expressed genes (DEG) from two transcriptome datasets with 858 candidate genes identified in the core MQTL regions, we found 38 common differentially expressed candidate genes (DECGs). In silico expression analysis of these DECGs led to the identification of 21 genes with high expression in embryo and coleoptile under submerged conditions. These DECGs encode proteins with known functions involved in submergence tolerance including WRKY, F-box, zinc fingers, glycosyltransferase, protein kinase, cytochrome P450, PP2C, hypoxia-responsive family, and DUF domain. By haplotype analysis, the 21 DECGs demonstrated distinct genetic differentiation and substantial genetic distance mainly between indica and japonica subspecies. Further, the MQTL7.1 was successfully validated using flanked marker S2329 on a set of genotypes with phenotypic variation.

CONCLUSION

This study provides a new perspective on understanding the genetic basis of submergence tolerance in rice. The identified MQTL and novel candidate genes lay the foundation for marker-assisted breeding/engineering of flooding-tolerant cultivars conducive to direct seeding.

A meta-quantitative trait loci analysis identified consensus genomic regions and candidate genes associated with grain yield in rice

Improving grain yield potential in rice is an important step toward addressing global food security challenges. The meta-QTL analysis offers stable and robust QTLs irrespective of the genetic background of mapping populations and phenotype environment and effectively narrows confidence intervals (CI) for candidate gene (CG) mining and marker-assisted selection improvement. To achieve these aims, a comprehensive bibliographic search for grain yield traits (spikelet fertility, number of grains per panicle, panicles number per plant, and 1000-grain weight) QTLs was conducted, and 462 QTLs were retrieved from 47 independent QTL research published between 2002 and 2022. QTL projection was performed using a reference map with a cumulative length of 2,945.67 cM, and MQTL analysis was conducted on 313 QTLs. Consequently, a total of 62 MQTLs were identified with reduced mean CI (up to 3.40 fold) compared to the mean CI of original QTLs. However, 10 of these MQTLs harbored at least six of the initial QTLs from diverse genetic backgrounds and environments and were considered the most stable and robust MQTLs. Also, MQTLs were compared with GWAS studies and resulted in the identification of 16 common significant loci modulating the evaluated traits. Gene annotation, gene ontology (GO) enrichment, and RNA-seq analyses of chromosome regions of the stable MQTLs detected 52 potential CGs including those that have been cloned in previous studies. These genes encode proteins known to be involved in regulating grain yield including cytochrome P450, zinc fingers, MADs-box, AP2/ERF domain, F-box, ubiquitin ligase domain protein, homeobox domain, DEAD-box ATP domain, and U-box domain. This study provides the framework for molecular dissection of grain yield in rice. Moreover, the MQTLs and CGs identified could be useful for fine mapping, gene cloning, and marker-assisted selection to improve rice productivity.

Unravelling consensus genomic regions conferring leaf rust resistance in wheat via meta-QTL analysis

Leaf rust, caused by the fungus Puccinia triticina Erikss (Pt), is a destructive disease affecting wheat (Triticum aestivum L.) and a threat to food security. Developing resistant cultivars represents a useful method of disease control, and thus, understanding the genetic basis for leaf rust resistance is required. To this end, a comprehensive bibliographic search for leaf rust resistance quantitative trait loci (QTL) was performed, and 393 QTL were collected from 50 QTL mapping studies. Afterward, a consensus map with a total length of 4,567 cM consisting of different types of markers (simple sequence repeat [SSR], diversity arrays technology [DArT], chip-based single-nucleotide polymorphism [SNP] markers, and SNP markers from genotyping-by-sequencing) was used for QTL projection, and meta-QTL (MQTL) analysis was performed on 320 QTL. A total of 75 MQTL were discovered and refined to 15 high-confidence MQTL (hcmQTL). The candidate genes discovered within the hcmQTL interval were then checked for differential expression using data from three transcriptome studies, resulting in 92 differentially expressed genes (DEGs). The expression of these genes in various leaf tissues during wheat development was explored. This study provides insight into leaf rust resistance in wheat and thereby provides an avenue for developing resistant cultivars by incorporating the most important hcmQTL.

Large-scale integration of meta-QTL and genome-wide association study discovers the genomic regions and candidate genes for yield and yield-related traits in bread wheat

Based on the large-scale integration of meta-QTL and Genome-Wide  Association Study, 76 high-confidence MQTL regions and 237 candidate genes that affected wheat yield and yield-related traits were discovered. Improving yield and yield-related traits are key goals in wheat breeding program. The integration of accumulated wheat genetic resources provides an opportunity to uncover important genomic regions and candidate genes that affect wheat yield. Here, a comprehensive meta-QTL analysis was conducted on 2230 QTL of yield-related traits obtained from 119 QTL studies. These QTL were refined into 145 meta-QTL (MQTL), and 89 MQTL were verified by GWAS with different natural populations. The average confidence interval (CI) of these MQTL was 2.92 times less than that of the initial QTL. Furthermore, 76 core MQTL regions with a physical distance less than 25 Mb were detected. Based on the homology analysis and expression patterns, 237 candidate genes in the MQTL involved in photoperiod response, grain development, multiple plant growth regulator pathways, carbon and nitrogen metabolism and spike and flower organ development were determined. A novel candidate gene TaKAO-4A was confirmed to be significantly associated with grain size, and a CAPS marker was developed based on its dominant haplotype. In summary, this study clarified a method based on the integration of meta-QTL, GWAS and homology comparison to reveal the genomic regions and candidate genes that affect important yield-related traits in wheat. This work will help to lay a foundation for the identification, transfer and aggregation of these important QTL or candidate genes in wheat high-yield breeding.

Amino acid transporter (AAT) gene family in foxtail millet (Setaria italica L.): widespread family expansion, functional differentiation, roles in quality formation and response to abiotic stresses

Background

Amino acid transporters (AATs) plays an essential roles in growth and development of plants, including amino acids long-range transport, seed germination, quality formation, responsiveness to pathogenic bacteria and abiotic stress by modulating the transmembrane transfer of amino acids. In this study, we performed a genome-wide screening to analyze the AAT genes in foxtail millet (Setaria italica L.), especially those associated with quality formation and abiotic stresses response.

Results

A total number of 94 AAT genes were identified and divided into 12 subfamilies by their sequence characteristics and phylogenetic relationship. A large number (58/94, 62%) of AAT genes in foxtail millet were expanded via gene duplication, involving 13 tandem and 12 segmental duplication events. Tandemly duplicated genes had a significant impact on their functional differentiation via sequence variation, structural variation and expression variation. Further comparison in multiple species showed that in addition to paralogous genes, the expression variations of the orthologous AAT genes also contributed to their functional differentiation. The transcriptomic comparison of two millet cultivars verified the direct contribution of the AAT genes such as SiAAP1, SiAAP8, and SiAUX2 in the formation of grain quality. In addition, the qRT-PCR analysis suggested that several AAT genes continuously responded to diverse abiotic stresses, such as SiATLb1, SiANT1. Finally, combined with the previous studies and analysis on sequence characteristics and expression patterns of AAT genes, the possible functions of the foxtail millet AAT genes were predicted.

Conclusion

This study for the first time reported the evolutionary features, functional differentiation, roles in the quality formation and response to abiotic stresses of foxtail millet AAT gene family, thus providing a framework for further functional analysis of SiAAT genes, and also contributing to the applications of AAT genes in improving the quality and resistance to abiotic stresses of foxtail millet, and other cereal crops.

Supplementary Information

The online version contains supplementary material available at 10.1186/s12864-021-07779-9.

Measuring Topological Invariants in a Polaritonic Analog of Graphene

Topological materials rely on engineering global properties of their bulk energy bands called topological invariants. These invariants, usually defined over the entire Brillouin zone, are related to the existence of protected edge states. However, for an important class of Hamiltonians corresponding to 2D lattices with time-reversal and chiral symmetry (e.g., graphene), the existence of edge states is linked to invariants that are not defined over the full 2D Brillouin zone, but on reduced 1D subspaces. Here, we demonstrate a novel scheme based on a combined real- and momentum-space measurement to directly access these 1D topological invariants in lattices of semiconductor microcavities confining exciton polaritons. We extract these invariants in arrays emulating the physics of regular and critically compressed graphene where Dirac cones have merged. Our scheme provides a direct evidence of the bulk-edge correspondence in these systems and opens the door to the exploration of more complex topological effects, e.g., involving disorder and interactions.

Topological Swing of Bloch Oscillations in Quantum Walks

We report new oscillations of wave packets in quantum walks subjected to electric fields, that decorate the usual Bloch-Zener oscillations of insulators. The number of turning points (or suboscillations) within one Bloch period of these oscillations is found to be governed by the winding of the quasienergy spectrum. Thus, this provides a new physical manifestation of a topological property of periodically driven systems that can be probed experimentally. Our model, based on an oriented scattering network, is readily implementable in photonic and cold atomic setups.

Semi-Dirac Transport and Anisotropic Localization in Polariton Honeycomb Lattices

Compression dramatically changes the transport and localization properties of graphene. This is intimately related to the change of symmetry of the Dirac cone when the particle hopping is different along different directions of the lattice. In particular, for a critical compression, a semi-Dirac cone is formed with massless and massive dispersions along perpendicular directions. Here we show direct evidence of the highly anisotropic transport of polaritons in a honeycomb lattice of coupled micropillars implementing a semi-Dirac cone. If we optically induce a vacancylike defect in the lattice, we observe an anisotropically localized polariton distribution in a single sublattice, a consequence of the semi-Dirac dispersion. Our work opens up new horizons for the study of transport and localization in lattices with chiral symmetry and exotic Dirac dispersions.

Polariton fluids for analogue gravity physics

Analogue gravity enables the study of fields on curved space-times in the laboratory. There are numerous experimental platforms in which amplification at the event horizon or the ergoregion has been observed. Here, we demonstrate how optically generating a defect in a polariton microcavity enables the creation of one- and two-dimensional, transsonic fluid flows. We show that this highly tuneable method permits the creation of horizons. Furthermore, we present a rotating geometry akin to the water-wave bathtub vortex. These experiments usher in the possibility of observing stimulated as well as spontaneous amplification by the Hawking, Penrose and Zeld'ovich effects in fluids of light. This article is part of a discussion meeting issue 'The next generation of analogue gravity experiments'.

Phenylpropanoid Pathway Engineering: An Emerging Approach towards Plant Defense

Pathogens hitting the plant cell wall is the first impetus that triggers the phenylpropanoid pathway for plant defense. The phenylpropanoid pathway bifurcates into the production of an enormous array of compounds based on the few intermediates of the shikimate pathway in response to cell wall breaches by pathogens. The whole metabolomic pathway is a complex network regulated by multiple gene families and it exhibits refined regulatory mechanisms at the transcriptional, post-transcriptional, and post-translational levels. The pathway genes are involved in the production of anti-microbial compounds as well as signaling molecules. The engineering in the metabolic pathway has led to a new plant defense system of which various mechanisms have been proposed including salicylic acid and antimicrobial mediated compounds. In recent years, some key players like phenylalanine ammonia lyases (PALs) from the phenylpropanoid pathway are proposed to have broad spectrum disease resistance (BSR) without yield penalties. Now we have more evidence than ever, yet little understanding about the pathway-based genes that orchestrate rapid, coordinated induction of phenylpropanoid defenses in response to microbial attack. It is not astonishing that mutants of pathway regulator genes can show conflicting results. Therefore, precise engineering of the pathway is an interesting strategy to aim at profitably tailored plants. Here, this review portrays the current progress and challenges for phenylpropanoid pathway-based resistance from the current prospective to provide a deeper understanding.

Orbital angular momentum bistability in a microlaser

Light's orbital angular momentum (OAM) is an unbounded degree of freedom emerging in helical beams that appears very advantageous technologically. Using chiral microlasers, i.e., integrated devices that allow generating an emission carrying a net OAM, we demonstrate a regime of bistability involving two modes presenting distinct OAM (ℓ=0 and ℓ=2). Furthermore, thanks to an engineered spin-orbit coupling of light in these devices, these modes also exhibit distinct polarization patterns, i.e., circular and azimuthal polarizations. Using a dynamical model of rate equations, we show that this bistability arises from polarization-dependent saturation of the gain medium. Such a bistable regime appears very promising for implementing ultrafast optical switches based on the OAM of light. As well, it paves the way for the exploration of dynamical processes involving phase and polarization vortices.

Nonlinear Polariton Fluids in a Flatband Reveal Discrete Gap Solitons

Phase frustration in periodic lattices is responsible for the formation of dispersionless flatbands. The absence of any kinetic energy scale makes flatband physics critically sensitive to perturbations and interactions. We report on the experimental investigation of the nonlinear response of cavity polaritons in the gapped flatband of a one-dimensional Lieb lattice. We observe the formation of gap solitons with quantized size and abrupt edges, a signature of the frozen propagation of switching fronts. This type of gap soliton belongs to the class of truncated Bloch waves, and has only been observed in closed systems up to now. Here, the driven-dissipative character of the system gives rise to a complex multistability of the flatband nonlinear domains. These results open up an interesting perspective regarding more complex 2D lattices and the generation of correlated photon phases.

Probing a Dissipative Phase Transition via Dynamical Optical Hysteresis

We experimentally explore the dynamical optical hysteresis of a semiconductor microcavity as a function of the sweep time. The hysteresis area exhibits a double power law decay due to the influence of fluctuations, which trigger switching between metastable states. Upon increasing the average photon number and approaching the thermodynamic limit, the double power law evolves into a single power law. This algebraic behavior characterizes a dissipative phase transition. Our findings are in good agreement with theoretical predictions for a single mode resonator influenced by quantum fluctuations, and the present experimental approach is promising for exploring critical phenomena in photonic lattices.

Orbital Edge States in a Photonic Honeycomb Lattice

We experimentally reveal the emergence of edge states in a photonic lattice with orbital bands. We use a two-dimensional honeycomb lattice of coupled micropillars whose bulk spectrum shows four gapless bands arising from the coupling of p-like photonic orbitals. We observe zero-energy edge states whose topological origin is similar to that of conventional edge states in graphene. Additionally, we report novel dispersive edge states in zigzag and armchair edges. The observations are reproduced by tight-binding and analytical calculations, which we extend to bearded edges. Our work shows the potentiality of coupled micropillars in elucidating some of the electronic properties of emergent two-dimensional materials with orbital bands.

Phase-Controlled Bistability of a Dark Soliton Train in a Polariton Fluid

We use a one-dimensional polariton fluid in a semiconductor microcavity to explore the nonlinear dynamics of counterpropagating interacting Bose fluids. The intrinsically driven-dissipative nature of the polariton fluid allows us to use resonant pumping to impose a phase twist across the fluid. When the polariton-polariton interaction energy becomes comparable to the kinetic energy, linear interference fringes transform into a train of solitons. A novel type of bistable behavior controlled by the phase twist across the fluid is experimentally evidenced.

Bosonic Condensation and Disorder-Induced Localization in a Flat Band

We report on the engineering of a nondispersive (flat) energy band in a geometrically frustrated lattice of micropillar optical cavities. By taking advantage of the non-Hermitian nature of our system, we achieve bosonic condensation of exciton polaritons into the flat band. Because of the infinite effective mass in such a band, the condensate is highly sensitive to disorder and fragments into localized modes reflecting the elementary eigenstates produced by geometric frustration. This realization offers a novel approach to studying coherent phases of light and matter under the controlled interplay of frustration, interactions, and dissipation.

Acoustic black hole in a stationary hydrodynamic flow of microcavity polaritons

We report an experimental study of superfluid hydrodynamic effects in a one-dimensional polariton fluid flowing along a laterally patterned semiconductor microcavity and hitting a micron-sized engineered defect. At high excitation power, superfluid propagation effects are observed in the polariton dynamics; in particular, a sharp acoustic horizon is formed at the defect position, separating regions of sub- and supersonic flow. Our experimental findings are quantitatively reproduced by theoretical calculations based on a generalized Gross-Pitaevskii equation. Promising perspectives to observe Hawking radiation via photon correlation measurements are illustrated.

Possible selection of viable human blastocysts after vitrification by monitoring morphological changes

PURPOSE

Morphological assessment of human blastocysts has been effective for selecting embryos with high potential. However, they often show repeated shrinkage and expansion toward their hatching. Here we assessed whether capturing morphological changes over time of vitrified-warmed blastocysts could lead to a better selection of viable embryos from shrunken blastocysts.

METHODS

The implantation rates of vitrified-warmed blastocysts that were shrunken or expanded (developing) at the time of loading for transfer were compared among 2,729 cycles that were subjected to single blastocyst transfer. Vitrified (107) and fresh blastocysts (17) were donated for the experimental study. To assess the relationship between morphology (expanded vs. shrunken) and the mitochondrial respiration of blastocysts, the oxygen consumption rate (OCR) was analyzed for 55 specimens using an uncoupler of oxidative phosphorylation. The remaining 69 blastocysts were used for recording morphological changes every 15 min for 48 h after warming.

RESULTS

Because there were no surplus embryos, 7 % of the vitrified-warmed blastocysts were shrunken and transferred. The shrunken embryos had sufficient implantation ability (40 %). The OCR of the shrunken embryos was significantly lower than that of their expanded counterparts. Upon exposure to the uncoupler, the OCR of some shrunken embryos increased to levels similar to the expanded specimens. Time-lapse images revealed some shrunken embryos which formed blastocoel by 5 h following warming exhibited developmental competence to the hatched stage.

CONCLUSIONS

Data of the present study suggest a group of shrunken blastocysts contains many viable and clinically available embryos and time-lapse observation of vitrified-warmed blastocysts is a potential method to distinguish viable embryos from shrunken blastocysts.

Fractal energy spectrum of a polariton gas in a Fibonacci quasiperiodic potential

We report on the study of a polariton gas confined in a quasiperiodic one-dimensional cavity, described by a Fibonacci sequence. Imaging the polariton modes both in real and reciprocal space, we observe features characteristic of their fractal energy spectrum such as the opening of minigaps obeying the gap labeling theorem and log-periodic oscillations of the integrated density of states. These observations are accurately reproduced solving an effective 1D Schrödinger equation, illustrating the potential of cavity polaritons as a quantum simulator in complex topological geometries.

Direct observation of Dirac cones and a flatband in a honeycomb lattice for polaritons

Two-dimensional lattices of coupled micropillars etched in a planar semiconductor microcavity offer a workbench to engineer the band structure of polaritons. We report experimental studies of honeycomb lattices where the polariton low-energy dispersion is analogous to that of electrons in graphene. Using energy-resolved photoluminescence, we directly observe Dirac cones, around which the dynamics of polaritons is described by the Dirac equation for massless particles. At higher energies, we observe p orbital bands, one of them with the nondispersive character of a flatband. The realization of this structure which holds massless, massive, and infinitely massive particles opens the route towards studies of the interplay of dispersion, interactions, and frustration in a novel and controlled environment.

Realization of a double-barrier resonant tunneling diode for cavity polaritons

We report on the realization of a double-barrier resonant tunneling diode for cavity polaritons, by lateral patterning of a one-dimensional cavity. Sharp transmission resonances are demonstrated when sending a polariton flow onto the device. We show that a nonresonant beam can be used as an optical gate and can control the device transmission. Finally, we evidence distortion of the transmission profile when going to the high-density regime, signature of polariton-polariton interactions.

Polariton condensation in solitonic gap states in a one-dimensional periodic potential

Manipulation of nonlinear waves in artificial periodic structures leads to spectacular spatial features, such as generation of gap solitons or onset of the Mott insulator phase transition. Cavity exciton-polaritons are strongly interacting quasiparticles offering large possibilities for potential optical technologies. Here we report their condensation in a one-dimensional microcavity with a periodic modulation. The resulting mini-band structure dramatically influences the condensation process. Contrary to non-modulated cavities, where condensates expand, here, we observe spontaneous condensation in localized gap soliton states. Depending on excitation conditions, we access different dynamical regimes: we demonstrate the formation of gap solitons either moving along the ridge or bound to the potential created by the reservoir of uncondensed excitons. We also find Josephson oscillations of gap solitons triggered between the two sides of the reservoir. This system is foreseen as a building block for polaritonic circuits, where propagation and localization are optically controlled and reconfigurable.

Propagation and amplification dynamics of 1D polariton condensates

The dynamics of propagating polariton condensates in one-dimensional microcavities is investigated through time resolved experiments. We find a strong increase in the condensate intensity when it travels through the nonresonantly excited area. This amplification is shown to come from bosonic stimulated relaxation of reservoir excitons into the polariton condensate, allowing for the repopulation of the condensate through nonresonant pumping. Thus, we experimentally demonstrate a polariton amplifier with a large band width, opening the way towards the transport of polaritons with high densities over macroscopic distances.

Backscattering suppression in supersonic 1D polariton condensates

We investigate the effect of disorder on the propagation of one-dimensional polariton condensates in semiconductor microcavities. We observe a strong suppression of the backscattering produced by the imperfections of the structure when increasing the condensate density. This suppression occurs in the supersonic regime and is simultaneous to the onset of parametric instabilities which enable the "hopping" of the condensate through the disorder. Our results evidence a new mechanism for the strong scattering reduction of polaritons at high speeds.

Motion of spin polariton bullets in semiconductor microcavities

The dynamics of optical switching in semiconductor microcavities in the strong coupling regime is studied by using time- and spatially resolved spectroscopy. The switching is triggered by polarized short pulses which create spin bullets of high polariton density. The spin packets travel with speeds of the order of 10(6)  m/s due to the ballistic propagation and drift of exciton polaritons from high to low density areas. The speed is controlled by the angle of incidence of the excitation beams, which changes the polariton group velocity.

Spin rings in bistable planar semiconductor microcavities

A remarkable feature of exciton-polaritons is the strongly spin-dependent polariton-polariton interaction, which has been predicted to result in the formation of spin rings in real space [Shelykh, Phys. Rev. Lett. 100, 116401 (2008)]. Here we experimentally demonstrate the spin bistability of exciton polaritons in an InGaAs-based semiconductor microcavity under resonant optical pumping. We observe the formation of spin rings whose size can be finely controlled in a spatial scale down to the micrometer range, much smaller than the spot size. Demonstration of optically controlled spin patterns in semiconductors opens way to the realization of spin logic devices and spin memories.

Polariton condensates put in motion

We present several examples of the interesting phenomenology shown by a moving polariton condensate in semiconductor microcavities. The superfluid behavior is probed by colliding the polariton condensate against physical obstacles in the form of natural defects of the sample, demonstrating a clear suppression of scattering when the speed of the flow lies below the critical velocity. At higher velocities Cerenkov-like shock waves around the defect and disruption of the condensate are also observed.

Dynamics of the formation and decay of coherence in a polariton condensate

We study the dynamics of the formation and decay of a condensate of microcavity polaritons. We investigate the relationship among the number of particles, the emission linewidth, and its degree of linear polarization, which serves as the order parameter. Tracking the condensate formation, we show that coherence is not determined only by occupation of the ground state, bringing new insights into the determining factors for Bose-Einstein condensation.

Observation of long-lived polariton states in semiconductor microcavities across the parametric threshold

The excitation spectrum around the pump-only stationary state of a polariton optical parametric oscillator in semiconductor microcavities is investigated by time-resolved photoluminescence. The response to a weak pulsed perturbation in the vicinity of the idler mode is directly related to the lifetime of the elementary excitations. A dramatic increase of the lifetime is observed for a pump intensity approaching and exceeding the optical parametric oscillator threshold. The observations can be explained in terms of a critical slowing down of the dynamics upon approaching the threshold and the following appearance of a soft Goldstone mode in the spectrum.

Polariton and spin dynamics in semiconductor microcavities under non-resonant excitation

Semiconductor microcavities offer an ideal scenario to study strong radiation-matter interactions. In this paper we review the temporal dynamics of polaritons in II-VI and III-V based microcavities under non-resonant excitation conditions. We present evidence of final-state stimulated scattering and discuss the spin-dependent emission, which exhibits a remarkably rich behaviour.

Detection of Legionella pneumophila in bioaerosols by polymerase chain reaction

Most studies focusing on detecting microorganisms in air by polymerase chain reaction (PCR) have used a liquid impinger to sample bioaerosols, mainly because a liquid sample is easy to be processed by PCR analysis. Nevertheless, the use of multiple-hole impactors for the analysis of bioaerosols by PCR has not been reported despite its great utility in culture analysis. In this study we have modified the impaction onto an agar surface sampling method to impaction onto a liquid medium using the MAS-100 air sampler (Merck) (single-stage multiple-hole impactor). To evaluate the recovery of airborne microorganisms of both sampling methods, a suspension containing Escherichia coli was artificially aerosolized and bioaerosols were collected onto Tergitol-7 agar and phosphate-buffered saline (PBS) with the MAS-100. A linear regression analysis of the results showed a strong positive correlation between both sampling methods (r = 0.99, slope 0.99, and y intercept 0.07). Afterwards, the method of impingement into a liquid medium was used to study airborne Legionella pneumophila by PCR. A total of 64 samples were taken at a wastewater treatment plant, a chemical plant, and an office building and analyzed by culture and PCR. Results showed that three samples were positive both by PCR and plate culture, and that nine samples negative by plate culture were positive by PCR, proving that L. pneumophila was present in bioaerosols from these three different environments. The results demonstrate the utility of this single-stage multiple-hole impactor for sampling bioaerosols, both by culture and by PCR.

[Fibroepithelial polyp of the ureter. Report of a new case]

Fibroepithelial polyps are rare benign tumours presenting in one every hundred cases of ureter primitive tumours. Interest on this type of pathology is founded in its low incidence and on being able to reach a pre-operative diagnosis prior to taking surgical action. Uretero-renoscopy is currently the best method available for the identification and histological diagnosis of this polyp.

[Cavernous angioma of the testis. Presentation of a new case]

We present a fresh case of testicular angioma in a 15-year-old patient. The symptomatology displayed, along with the scrotal echograph, made us suspect the existence of testicular tumoration, which led us to carry out surgical exploration. After orchiectomy, it is Pathological Anatomy that provides us with the final diagnosis. We comment on the different histological patterns and make a review of the literature.