Bioprospecting desert plant Bacillus endophytic strains for their potential to enhance plant stress tolerance

© 2019, The Author(s). Plant growth-promoting bacteria (PGPB) are known to increase plant tolerance to several abiotic stresses, specifically those from dry and salty environments. In this study, we examined the endophyte bacterial community of five plant species growing in the Thar desert of Pakistan. Among a total of 368 culturable isolates, 58 Bacillus strains were identified from which the 16 most divergent strains were characterized for salt and heat stress resilience as well as antimicrobial and plant growth-promoting (PGP) activities. When the 16 Bacillus strains were tested on the non-host plant Arabidopsis thaliana, B. cereus PK6-15, B. subtilis PK5-26 and B. circulans PK3-109 significantly enhanced plant growth under salt stress conditions, doubling fresh weight levels when compared to uninoculated plants. B. circulans PK3-15 and PK3-109 did not promote plant growth under normal conditions, but increased plant fresh weight by more than 50% when compared to uninoculated plants under salt stress conditions, suggesting that these salt tolerant Bacillus strains exhibit PGP traits only in the presence of salt. Our data indicate that the collection of 58 plant endophytic Bacillus strains represents an important genomic resource to decipher plant growth promotion at the molecular level

Comparative genomics study reveals Red Sea Bacillus with characteristics associated with potential microbial cell factories (MCFs)

© 2019, The Author(s). Recent advancements in the use of microbial cells for scalable production of industrial enzymes encourage exploring new environments for efficient microbial cell factories (MCFs). Here, through a comparison study, ten newly sequenced Bacillus species, isolated from the Rabigh Harbor Lagoon on the Red Sea shoreline, were evaluated for their potential use as MCFs. Phylogenetic analysis of 40 representative genomes with phylogenetic relevance, including the ten Red Sea species, showed that the Red Sea species come from several colonization events and are not the result of a single colonization followed by speciation. Moreover, clustering reactions in reconstruct metabolic networks of these Bacillus species revealed that three metabolic clades do not fit the phylogenetic tree, a sign of convergent evolution of the metabolism of these species in response to special environmental adaptation. We further showed Red Sea strains Bacillus paralicheniformis (Bac48) and B. halosaccharovorans (Bac94) had twice as much secreted proteins than the model strain B. subtilis 168. Also, Bac94 was enriched with genes associated with the Tat and Sec protein secretion system and Bac48 has a hybrid PKS/NRPS cluster that is part of a horizontally transferred genomic region. These properties collectively hint towards the potential use of Red Sea Bacillus as efficient protein secreting microbial hosts, and that this characteristic of these strains may be a consequence of the unique ecological features of the isolation environment

“Ten Commandments” for the Appropriate use of Antibiotics by the Practicing Physician in an Outpatient Setting

A multi-national working group on antibiotic stewardship, from the International Society of Chemotherapy, put together ten recommendations to physicians prescribing antibiotics to outpatients. These recommendations are: (1) use antibiotics only when needed; teach the patient how to manage symptoms of non-bacterial infections; (2) select the adequate ATB; precise targeting is better than shotgun therapy; (3) consider pharmacokinetics and pharmacodynamics when selecting an ATB; use the shortest ATB course that has proven clinical efficacy; (4) encourage patients’ compliance; (5) use antibiotic combinations only in specific situations; (6) avoid low quality and sub-standard drugs; prevent prescription changes at the drugstore; (7) discourage self-prescription; (8) follow only evidence-based guidelines; beware those sponsored by drug companies; (9) rely (rationally) upon the clinical microbiology lab; and (10) prescribe ATB empirically – but intelligently; know local susceptibility trends, and also surveillance limitations

Exploring the atmospheric dynamics of the extreme ultra-hot Jupiter KELT-9b using TESS photometry

We carry out a phase-curve analysis of the KELT-9 system using photometric observations from NASA's Transiting Exoplanet Survey Satellite (TESS). The measured secondary eclipse depth and peak-to-peak atmospheric brightness modulation are $650^{+14}_{-15}$ ppm and $566\pm16$ ppm, respectively. The planet's brightness variation reaches maximum $31\pm5$ minutes before the midpoint of the secondary eclipse, indicating a $5\overset{\circ}{.}2\pm0\overset{\circ}{.}9$ eastward shift in the dayside hot spot from the substellar point. We also detect stellar pulsations on KELT-9 with a period of $7.58695\pm0.00091$ hours. The dayside emission of KELT-9b in the TESS bandpass is consistent with a blackbody brightness temperature of $4600\pm100$ K. The corresponding nightside brightness temperature is $3040\pm100$ K, comparable to the dayside temperatures of the hottest known exoplanets. In addition, we detect a significant phase-curve signal at the first harmonic of the orbital frequency and a marginal signal at the second harmonic. While the amplitude of the first harmonic component is consistent with the predicted ellipsoidal distortion modulation assuming equilibrium tides, the phase of this photometric variation is shifted relative to the expectation. Placing KELT-9b in the context of other exoplanets with phase-curve observations, we find that the elevated nightside temperature and relatively low day-night temperature contrast agree with the predictions of atmospheric models that include H$_{2}$ dissociation and recombination. The nightside temperature of KELT-9b implies an atmospheric composition containing about 50% molecular and 50% atomic hydrogen at 0.1 bar, a nightside emission spectrum that deviates significantly from a blackbody, and a 0.5-2.0 $\mu$m transmission spectrum that is featureless at low resolution.Comment: Published in AJ, updated with proof corrections. 17 pages, 8 figure

Exploring the Atmospheric Dynamics of the Extreme Ultrahot Jupiter KELT-9b Using TESS Photometry

We carry out a phase-curve analysis of the KELT-9 system using photometric observations from NASA's Transiting Exoplanet Survey Satellite (TESS). The measured secondary eclipse depth and peak-to-peak atmospheric brightness modulation are 650⁺¹⁴₋₁₅ and 566 ± 16 ppm, respectively. The planet's brightness variation reaches maximum 31 ± 5 minutes before the midpoint of the secondary eclipse, indicating a 5.°2 ± 0.°9 eastward shift in the dayside hot spot from the substellar point. We also detect stellar pulsations on KELT-9 with a period of 7.58695 ± 0.00091 hr. The dayside emission of KELT-9b in the TESS bandpass is consistent with a blackbody brightness temperature of 4600 ± 100 K. The corresponding nightside brightness temperature is 3040 ± 100 K, comparable to the dayside temperatures of the hottest known exoplanets. In addition, we detect a significant phase-curve signal at the first harmonic of the orbital frequency and a marginal signal at the second harmonic. While the amplitude of the first harmonic component is consistent with the predicted ellipsoidal distortion modulation assuming equilibrium tides, the phase of this photometric variation is shifted relative to the expectation. Placing KELT-9b in the context of other exoplanets with phase-curve observations, we find that the elevated nightside temperature and relatively low day–night temperature contrast agree with the predictions of atmospheric models that include H₂ dissociation and recombination. The nightside temperature of KELT-9b implies an atmospheric composition containing about 50% molecular and 50% atomic hydrogen at 0.1 bar, a nightside emission spectrum that deviates significantly from a blackbody, and a 0.5–2.0 μm transmission spectrum that is featureless at low resolution

Informed consent for HIV cure research in South Africa: issues to consider

Background: South Africa has made great progress in the development of HIV/AIDS testing, treatment and prevention campaigns. Yet, it is clear that prevention and treatment campaigns alone are not enough to bring this epidemic under control. Discussion: News that the “Berlin patient” and the “Mississippi baby” have both been “cured” of HIV brought hope to people living with HIV/AIDS in South Africa that a cure for HIV/AIDS is within reach. Despite the recent setbacks announced in the “Mississippi Baby” case, protocols aimed at curing HIV/AIDS are being developed in South Africa. However with evidence to suggest that participants in clinical trials do not understand the basic concepts in the informed consent process, there is concern that future participants in HIV/AIDS cure research will lack comprehension of the basic elements of future clinical trials that aims to cure HIV/AIDS and confuse research with clinical care. Summary: Research ethics committees have an important role to play in ensuring that participants understand the basic concepts discussed in the informed consent process, that they understand that research is not clinical care and they are unlikely to benefit from any early phase trials seeking to cure HIV/AIDS

TOI-1842b: A Transiting Warm Saturn Undergoing Reinflation Around An Evolving Subgiant

The imminent launch of space telescopes designed to probe the atmospheres of exoplanets has prompted new efforts to prioritize the thousands of transiting planet candidates for follow-up characterization. We report the detection and confirmation of TOI-1842b, a warm Saturn identified by TESS and confirmed with ground-based observations from Minerva-Australis, NRES, and the Las Cumbres Observatory Global Telescope. This planet has a radius of 1.04 (+0.06)/(-0.05) RJ, a mass of 0.214 (+0.040)/(-0.038) MJ, an orbital period of 9.5739 (+0.0002)/(-0.0001) days, and an extremely low density (ρ = 0.252 ± 0.091 g cm⁻³). TOI-1842b has among the best known combinations of large atmospheric scale height (893 km) and host-star brightness (J = 8.747 mag), making it an attractive target for atmospheric characterization. As the host star is beginning to evolve off the main sequence, TOI-1842b presents an excellent opportunity to test models of gas giant reinflation. The primary transit duration of only 4.3 hr also makes TOI-1842b an easily-schedulable target for further ground-based atmospheric characterization

In silico exploration of Red Sea Bacillus genomes for natural product biosynthetic gene clusters

Background: The increasing spectrum of multidrug-resistant bacteria is a major global public health concern, necessitating discovery of novel antimicrobial agents. Here, members of the genus Bacillus are investigated as a potentially attractive source of novel antibiotics due to their broad spectrum of antimicrobial activities. We specifically focus on a computational analysis of the distinctive biosynthetic potential of Bacillus paralicheniformis strains isolated from the Red Sea, an ecosystem exposed to adverse, highly saline and hot conditions. Results: We report the complete circular and annotated genomes of two Red Sea strains, B. paralicheniformis Bac48 isolated from mangrove mud and B. paralicheniformis Bac84 isolated from microbial mat collected from Rabigh Harbor Lagoon in Saudi Arabia. Comparing the genomes of B. paralicheniformis Bac48 and B. paralicheniformis Bac84 with nine publicly available complete genomes of B. licheniformis and three genomes of B. paralicheniformis, revealed that all of the B. paralicheniformis strains in this study are more enriched in nonribosomal peptides (NRPs). We further report the first computationally identified trans-acyltransferase (trans-AT) nonribosomal peptide synthetase/polyketide synthase (PKS/ NRPS) cluster in strains of this species. Conclusions:B. paralicheniformis species have more genes associated with biosynthesis of antimicrobial bioactive compounds than other previously characterized species of B. licheniformis, which suggests that these species are better potential sources for novel antibiotics. Moreover, the genome of the Red Sea strain B. paralicheniformis Bac48 is more enriched in modular PKS genes compared to B. licheniformis strains and other B. paralicheniformis strains. This may be linked to adaptations that strains surviving in the Red Sea underwent to survive in the relatively hot and saline ecosystems

A super-Earth and a sub-Neptune orbiting the bright, quiet M3 dwarf TOI-1266

We report the discovery and characterisation of a super-Earth and a sub-Neptune transiting the bright (K = 8.8), quiet, and nearby (37 pc) M3V dwarf TOI-1266. We validate the planetary nature of TOI-1266 b and c using four sectors of TESS photometry and data from the newly-commissioned 1-m SAINT-EX telescope located in San Pedro Mártir (México). We also include additional ground-based follow-up photometry as well as high-resolution spectroscopy and high-angular imaging observations. The inner, larger planet has a radius of R = 2.37_(−0.12)^(+0.16) R_⊕ and an orbital period of 10.9 days. The outer, smaller planet has a radius of R = 1.56_(−0.13)^(+0.15) R_⊕ on an 18.8-day orbit. The data are found to be consistent with circular, co-planar and stable orbits that are weakly influenced by the 2:1 mean motion resonance. Our TTV analysis of the combined dataset enables model-independent constraints on the masses and eccentricities of the planets. We find planetary masses of M_p = 13.5_(−9.0)^(+11.0) M_⊕ (<36.8 M_⊕ at 2-σ) for TOI-1266 b and 2.2_(−1.5)^(+2.0) M_⊕ (<5.7 M_⊕ at 2-σ) for TOI-1266 c. We find small but non-zero orbital eccentricities of 0.09_(−0.05)^(+0.06) (<0.21 at 2-σ) for TOI-1266 b and 0.04 ± 0.03 (< 0.10 at 2-σ) for TOI-1266 c. The equilibrium temperatures of both planets are of 413 ± 20 and 344 ± 16 K, respectively, assuming a null Bond albedo and uniform heat redistribution from the day-side to the night-side hemisphere. The host brightness and negligible activity combined with the planetary system architecture and favourable planet-to-star radii ratios makes TOI-1266 an exquisite system for a detailed characterisation