Explore the vast range of titles available.

Genetic diversity is key to crop improvement. Owing to pervasive genomic structural variation, a single reference genome assembly cannot capture the full complement of sequence diversity of a crop species (known as the ‘pan-genome’ 1 ). Multiple high-quality sequence assemblies are an indispensable component of a pan-genome infrastructure. Barley ( Hordeum vulgare L.) is an important cereal crop with a long history of cultivation that is adapted to a wide range of agro-climatic conditions 2 . Here we report the construction of chromosome-scale sequence assemblies for the genotypes of 20 varieties of barley—comprising landraces, cultivars and a wild barley—that were selected as representatives of global barley diversity. We catalogued genomic presence/absence variants and explored the use of structural variants for quantitative genetic analysis through whole-genome shotgun sequencing of 300 gene bank accessions. We discovered abundant large inversion polymorphisms and analysed in detail two inversions that are frequently found in current elite barley germplasm; one is probably the product of mutation breeding and the other is tightly linked to a locus that is involved in the expansion of geographical range. This first-generation barley pan-genome makes previously hidden genetic variation accessible to genetic studies and breeding. Chromosome-scale sequence assemblies of 20 diverse varieties of barley are used to construct a first-generation pan-genome, revealing previously hidden genetic variation that can be used by studies aimed at crop improvement

Low-level temperature inversions play crucial roles in inhibiting vertical exchange of energy and mass, and may lead to air pollutants accumulation. The climatological study of them provides a fundamental overview of the static stability of atmosphere and is indispensable for air pollution controls. Based on high-vertical-resolution radiosondes at 00 and 12 UTC during 2011–2018, this work comprehensively examined the spatial and temporal variability of three characteristics (occurrences, strengths, and depths) of low-level inversions in China. Results revealed that inversions are prevalent (more than 80% of the observation records) over Eastern China. The northern part of Eastern China is dominated by the thick strong surface-based inversions with median thickness and strength of 200 m and 3 K, while the southern part by thin weak elevated ones of 80 m and 0.8 K. Tibetan Plateau experiences rare inversions (less than 50% of the time) which tend to be strong thick surface-based inversions with median depth and intensity of 170 m and 4 K. Inversion depths and strengths are positively correlated. The three properties of inversions present remarkable seasonal variations. Generally, inversions are strongest, thickest, and most frequent in winter and least so in summer, with median intensity and depth ranging from 0.3 K and 80 m to 5 K and 220 m. This paper also analyzed the monthly variations of inversions of four representative stations (Harbin, Urumqi, Beijing, and Chongqing) in details. These four cities are known for frequent severe air pollution events. The quantitative investigations of inversions may play a significant role in atmospheric environmental management.

The targeted deletion, replacement, integration or inversion of genomic sequences could be used to study or treat human genetic diseases, but existing methods typically require double-strand DNA breaks (DSBs) that lead to undesired consequences, including uncontrolled indel mixtures and chromosomal abnormalities. Here we describe twin prime editing (twinPE), a DSB-independent method that uses a prime editor protein and two prime editing guide RNAs (pegRNAs) for the programmable replacement or excision of DNA sequences at endogenous human genomic sites. The two pegRNAs template the synthesis of complementary DNA flaps on opposing strands of genomic DNA, which replace the endogenous DNA sequence between the prime-editor-induced nick sites. When combined with a site-specific serine recombinase, twinPE enabled targeted integration of gene-sized DNA plasmids (>5,000 bp) and targeted sequence inversions of 40 kb in human cells. TwinPE expands the capabilities of precision gene editing and might synergize with other tools for the correction or complementation of large or complex human pathogenic alleles. Prime editing of large DNA sequences is achieved with two pegRNAs and site-specific recombinases.

The mesospheric inversion layer (MIL) phenomenon is a temperature enhancement (10–50 K) in a vertical layer (∼10 km) lasting several days and spanning thousands of kilometers within the mesosphere. As MILs govern the mesospheric variability, their study is crucial for a better understanding of the middle‐atmosphere global circulation. MIL phenomenon is also important for applications in aeronautics as perturbations in the mesosphere are significant issues for the safe reentry of rockets, space shuttles, or missiles. However, the description of this phenomenon remains incomplete, since no observations of MIL's effects on winds exist, hampering an understanding of the mechanisms responsible for their formation. This study investigates simultaneous wind‐temperature observations in the altitude range of 30–90 km during MIL events. Strong winds deceleration occurred in the same altitude range as the temperature inversion, confirming the role of gravity waves in MIL's formation mechanisms. Plain Language Summary Atmospheric waves propagate from the lower to upper layers, transferring their energy throughout the atmosphere. The mesosphere (50–90 km) is subject to these energy transfers, causing unexpected temperature increases (10–50 K) over a vertical layer (∼10 km). These deviations are called mesospheric inversion layers (MILs). Though largely observed in temperature profiles, the MIL phenomenon remains misunderstood, as MIL's impacts on the wind in the middle atmosphere remain unknown. In this study, we first reported simultaneous wind‐temperature observations between 30 and 90 km during MIL events. We observed a strong wind deceleration in the same altitude range where the temperature increases. This result argues in favor of the role of gravity waves in MIL's formation mechanisms. Key Points First simultaneous wind and temperature observations in the altitude range 30–90 km during mesospheric inversion layer events According to these new observations, there is a strong wind deceleration occurring at the same altitude that the temperature inversion These results argue in favor of the mesospheric inversion layer's formation mechanism involving gravity wave dissipation

Background Chromosomal inversion polymorphisms have been associated with adaptive behavioral, physiological, morphological and life history traits in the two main Afrotropical malaria vectors, Anopheles coluzzii and Anopheles gambiae . The understanding of the adaptive value of chromosomal inversion systems is constrained by the feasibility of cytological karyotyping. In recent years in silico and molecular approaches have been developed for the genotyping of most widespread inversions (2La, 2Rb and 2Rc). The 2Ru inversion, spanning roughly 8% of chromosome 2R, is commonly polymorphic in West African populations of An. coluzzii and An. gambiae and shows clear increases in frequency with increasing rainfall seasonally and geographically. The aim of this work was to overcome the constraints of currently available cytological and high-throughput molecular assays by developing a simple PCR assay for genotyping the 2Ru inversion in individual specimens of both mosquito species. Methods We designed tetra-primer amplification refractory mutation system (ARMS)-PCR assays based on five tag single-nucleotide polymorphisms (SNPs) previously shown to be strongly correlated with 2Ru inversion orientation. The most promising assay was validated against laboratory and field samples of An. coluzzii and An. gambiae karyotyped either cytogenetically or molecularly using a genotyping-in-thousands by sequencing (GT-seq) high-throughput approach that employs targeted sequencing of multiplexed PCR amplicons. Results A successful assay was designed based on the tag SNP at position 2R, 31710303, which is highly predictive of the 2Ru genotype. The assay, which requires only one PCR, and no additional post-PCR processing other than electrophoresis, produced a clear banding pattern for 98.5% of the 454 specimens tested, which is a 96.7% agreement with established karyotyping methods. Sequences were obtained for nine of the An. coluzzii specimens manifesting 2Ru genotype discrepancies with GT-seq. Possible sources of these discordances are discussed. Conclusions The tetra-primer ARMS-PCR assay represents an accurate, streamlined and cost-effective method for the molecular karyotyping of the 2Ru inversion in An. coluzzii and An. gambiae. Together with approaches already available for the other common polymorphic inversions, 2La, 2Rb and 2Rc, this assay will allow investigations of the adaptive value of the complex set of inversion systems observed in the two major malaria vectors in the Afrotropical region. Graphical Abstract

Temperature inversions inhibit the transfer of momentum, heat and moisture in the atmosphere and have led to severe air pollution in China. This study investigated the spatiotemporal variation in temperature inversions in China using sounding data for the past four decades. Surface-based inversion, elevated inversion, and both in one sounding dataset were analysed. Statistical analyses of inversion parameters included frequency, strength and depth. The annual frequency of total inversions showed no significant increasing or decreasing trend with mean values of 0.78, 0.33, 0.24, 0.28, 0.5 and 0.36 at six stations representing different climate zones-Beijing, Harbin, Haikou, Shaowu, Ruoqiang, and Xining, respectively. The annual inversion strength and depth showed downward trends. Monthly variation in inversion frequency and strength differed among stations. The weakest surface-based inversion was found in summer at Beijing and Harbin with mean values of 1 and 1.3 °C, respectively; the strongest surface-based inversion was found in winter with respective mean values of 3.5 and 3.6 °C. Higher surface temperature in summer and subsidence aloft in winter may explain the monthly variation in inversion depth with a minimum in summer, with mean values of 165, 334, 135, 267, 363 and 420 m, and a maximum in winter, with mean values of 250, 646, 140, 591, 806 and 664 m, at the six respective stations. Total inversion was least frequent in southwestern China (mean 0.15), surface-based inversion was most frequent in the north (mean 0.78), and elevated inversion was most frequent in the southeast (mean 0.42). The strongest, deepest surface-based inversion dominated in the north (mean 3.4 °C and 398 m). Elevated inversion strength did not significantly differ among regions (mean 2.5 °C). The deepest elevated inversion dominated in the southeast (mean 654 m). Future efforts should focus on the interactions between aerosols and temperature inversions and accurate model simulations of temperature inversions.

Between 15 and 19 March 2022, East Antarctica experienced an exceptional heat wave with widespread 30°–40°C temperature anomalies across the ice sheet. This record-shattering event saw numerous monthly temperature records being broken including a new all-time temperature record of −9.4°C on 18 March at Concordia Station despite March typically being a transition month to the Antarctic coreless winter. The driver for these temperature extremes was an intense atmospheric river advecting subtropical/midlatitude heat and moisture deep into the Antarctic interior. The scope of the temperature records spurred a large, diverse collaborative effort to study the heat wave’s meteorological drivers, impacts, and historical climate context. Here we focus on describing those temperature records along with the intricate meteorological drivers that led to the most intense atmospheric river observed over East Antarctica. These efforts describe the Rossby wave activity forced from intense tropical convection over the Indian Ocean. This led to an atmospheric river and warm conveyor belt intensification near the coastline, which reinforced atmospheric blocking deep into East Antarctica. The resulting moisture flux and upper-level warm-air advection eroded the typical surface temperature inversions over the ice sheet. At the peak of the heat wave, an area of 3.3 million km 2 in East Antarctica exceeded previous March monthly temperature records. Despite a temperature anomaly return time of about 100 years, a closer recurrence of such an event is possible under future climate projections. In Part II we describe the various impacts this extreme event had on the East Antarctic cryosphere.

Clines in chromosomal inversion polymorphisms—presumably driven by climatic gradients—are common but there is surprisingly little evidence for selection acting on them. Here we address this long-standing issue in Drosophila melanogaster by using diagnostic single nucleotide polymorphism (SNP) markers to estimate inversion frequencies from 28 whole-genome Pool-seq samples collected from 10 populations along the North American east coast. Inversions In(3L)P, In(3R)Mo, and In(3R)Payne showed clear latitudinal clines, and for In(2L)t, In(2R)NS, and In(3R)Payne the steepness of the clinal slopes changed between summer and fall. Consistent with an effect of seasonality on inversion frequencies, we detected small but stable seasonal fluctuations of In(2R)NS and In(3R)Payne in a temperate Pennsylvanian population over 4 years. In support of spatially varying selection, we observed that the cline in In(3R)Payne has remained stable for >40 years and that the frequencies of In(2L)t and In(3R)Payne are strongly correlated with climatic factors that vary latitudinally, independent of population structure. To test whether these patterns are adaptive, we compared the amount of genetic differentiation of inversions versus neutral SNPs and found that the clines in In(2L)t and In(3R)Payne are maintained nonneutrally and independent of admixture. We also identified numerous clinal inversion-associated SNPs, many of which exhibit parallel differentiation along the Australian cline and reside in genes known to affect fitness-related traits. Together, our results provide strong evidence that inversion clines are maintained by spatially—and perhaps also temporally—varying selection. We interpret our data in light of current hypotheses about how inversions are established and maintained.

Concurrence of temperature inversion (TI) and humidity inversion (HI) is a particular configuration of the atmospheric boundary layer with important implications for early warning of fog formation. With a microwave radiometer device deployed in a 2‐month winter campaign at a coastal island in Qingdao, China, we here examine the relationship between TI and HI, and investigate the underneath mechanisms. Cases of temperature inversion are further divided into surface‐based temperature inversion (SBTI) and elevated temperature inversion (ETI), which show different relationship with HI. SBTI typically occurs at night with its strength significantly and positively correlated with HI. ETI also shows a high degree of temporal overlap with HI, but its strength has no obvious relationship with HI. The main explanation for this phenomenon is that ETI may block the vertical diffusion of water vapor, resulting in the formation of HI. Plain Language Summary Temperature inversion (TI) and humidity inversion (HI) often occur simultaneously. Knowledge of their concurrence is, however, still quite limited, due to the lack of continuous observations. Using a 2‐month winter observation data set, obtained with a microwave radiometer device deployed in Qingdao, China, a coastal city of the Yellow Sea, we carefully examined the correlation between TI and HI. TI is furthermore regrouped into surface‐based temperature inversion (SBTI) and elevated temperature inversion (ETI). Although SBTI and ETI both occur frequently, accompanied with HI, the underneath physical mechanism seems different. For SBTI, the bottom of HI absorbs the radiation emitted from the ground, increases the temperature difference between the land and atmosphere, and finally enhances SBTI. However, ETI plays the role of blocking the water vapor turbulent diffusion and contributes to the development of HI. Key Points Both surface‐based temperature inversion (SBTI) and elevated temperature inversion (ETI) show concurrence with humidity inversion (HI) Theories of water vapor condensation and turbulent diffusion blockage may not be sufficient for the concurrence of SBTI and HI ETI blocks the upward turbulent diffusion of water vapor, contributing to the formation of HI

Recent observations have shown that the atmospheres of ultrahot Jupiters (UHJs) commonly possess temperature inversions, where the temperature increases with increasing altitude. Nonetheless, which opacity sources are responsible for the presence of these inversions remains largely observationally unconstrained. We used LBT/PEPSI to observe the atmosphere of the UHJ KELT-20 b in both transmission and emission in order to search for molecular agents which could be responsible for the temperature inversion. We validate our methodology by confirming a previous detection of Fe i in emission at 16.9σ. Our search for the inversion agents TiO, VO, FeH, and CaH results in non-detections. Using injection-recovery testing we set 4σ upper limits upon the volume mixing ratios for these constituents as low as ∼1 × 10−9 for TiO. For TiO, VO, and CaH, our limits are much lower than expectations from an equilibrium chemical model, while we cannot set constraining limits on FeH with our data. We thus rule out TiO and CaH as the source of the temperature inversion in KELT-20 b, and VO only if the line lists are sufficiently accurate.