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At least 343 records · Page 19
All sourcesNASA NTRSDOE OSTI
DOE OSTI2025

Section-level genome sequencing and comparative genomics of Aspergillus sections Cavernicolus and Usti.

The genus Aspergillus is diverse, including species of industrial importance, human pathogens, plant pests, and model organisms. Aspergillus includes species from sections Usti and Cavernicolus, which until recently were joined in section Usti, but have now been proposed to be non-monophyletic and were split by section Nidulantes, Aenei and Raperi. To learn more about these sections, we have sequenced the genomes of 13 Aspergillus species from section Cavernicolus (A. cavernicola, A. californicus, and A. egyptiacus), section Usti (A. carlsbadensis, A. germanicus, A. granulosus, A. heterothallicus, A. insuetus, A. keveii, A. lucknowensis, A. pseudodeflectus and A. pseudoustus), and section Nidulantes (A. quadrilineatus, previously A. tetrazonus). We compared these genomes with 16 additional species from Aspergillus to explore their genetic diversity, based on their genome content, repeat-induced point mutations (RIPs), transposable elements, carbohydrate-active enzyme (CAZyme) profile, growth on plant polysaccharides, and secondary metabolite gene clusters (SMGCs). All analyses support the split of section Usti and provide additional insights: Analyses of genes found only in single species show that these constitute genes which appear to be involved in adaptation to new carbon sources, regulation to fit new niches, and bioactive compounds for competitive advantages, suggesting that these support species differentiation in Aspergillus species. Sections Usti and Cavernicolus have mainly unique SMGCs. Section Usti contains very large and information-rich genomes, an expansion partially driven by CAZymes, as section Usti contains the most CAZyme-rich species seen in genus Aspergillus. Section Usti is clearly an underutilized source of plant biomass degraders and shows great potential as industrial enzyme producers. Citation: Nybo JL, Vesth TC, Theobald S, Frisvad JC, Larsen TO, Kjaerboelling I, Rothschild-Mancinelli K, Lyhne EK, Barry K, Clum A, Yoshinaga Y, Ledsgaard L, Daum C, Lipzen A, Kuo A, Riley R, Mondo S, LaButti K, Haridas S, Pangalinan J, Salamov AA, Simmons BA, Magnuson JK, Chen J, Drula E, Henrissat B, Wiebenga A, Lubbers RJM, Müller A, dos Santos Gomes AC, Mäkelä MR, Stajich JE, Grigoriev IV, Mortensen UH, de Vries RP, Baker SE, Andersen MR (2025). Section-level genome sequencing and comparative genomics of Aspergillus sections Cavernicolus and Usti. Studies in Mycology 111: 101-114. doi: 10.3114/sim.2025.111.03.

59 BASIC BIOLOGICAL SCIENCES↗
DOE OSTI2024

Pooled whole-genome sequencing in Puccinia novopanici

Sori from switchgrass rust infections of plants in nine locations were sequenced to a high depth using whole-genome sequencing, with the goal of determining genetic diversity and divergence across the pathogen's range.

biofuel↗
NASA NTRS1963

THE ALGEBRA OF PERIODIC SEQUENCES

The set of periodic sequences over a field forms a group-ring algebra in which convolution is the product operation. Decomposition theorems are applied to this ring to aid in finding sequences with an arbitrary, specified autocorrelation function.

Periodic function↗
NASA NTRS1971

Radioactive transitions in the helium isoelectronic sequence

The principles of the atomic spectrum theory are used to quantitatively analyze radiation transitions in two-electron helium-like atomic systems. Quantum theoretical methods, describing absorption and emission of a single photon in a radiative transition between two stationary states of an atomic system, reproduced the energy level diagram for the low lying states of helium. Reliable values are obtained from accurate variationally determined two-electron nonrelativistic wave functions for radiative transition probabilities of 2 3p states in the helium isoelectric sequence, and for the 2 1s and 2 3s1 states of the helium sequence.

Dalgarno, A.↗
NASA NTRS1972

Computer programs for plotting curves with various dashed-line sequences

Two FORTRAN-callable subprograms have been written to draw a smooth curve through a set of input points as a solid line or as a general sequence of long and short dashes. Subroutine LINSEQ draws conventional curves whereas subroutine CONSEQ draws smooth closed curves (contours). The subprograms are based on an approximate calculation of the arc length along the curve and spline interpolation along the arc length. Options are provided for smoothing of the input data and for offsetting the plotted curve from the input data points. The method of calculation of the arc length and the generation of the line sequence are described.Usage descriptions of the main subprograms, sample calling programs illustrating the various features of the subprograms, and sample plots are given. The subroutines should be readily adaptable to almost any computer-driven incremental plotter.

Desmarais, R. N.↗
NASA NTRS1972

Application of optimization techniques to near terminal area sequencing and flow control.

Development of an arrival air-traffic management system for a single runway. Traffic is segregated throughout most of the near terminal area according to performance characteristics. Nominal approach routes for each class of aircraft are determined by an optimization procedure. In this fashion, the nominal approach routes are dependent upon and, hence, determined by the near terminal area operating capabilities of each class of aircraft. The landing order and spacing of aircraft on the common approach path are determined so that a measure of total system deviation from the nominal landing times is minimized and safety standards are met. Delay maneuvers required to satisfy sequencing needs are then carried out in a manner dependent upon the particular class of aircraft being maneuvered. Finally, results are presented to illustrate the effects of the rate of arrivals upon a one-runway system serving three different classes of aircraft employing several different sequencing strategies and measures of total system deviation.

Straeter, T. A.↗
NASA NTRS1972

Recently published protein sequences. I.

Some polypeptide sequences that have been published in the 1972 scientific literature are listed. Only selected sequences are included. The compilation has two objectives. Current information between periods when more comprehensive compilations are published is to be assembled and the use of data that do not include arrangements of unsequenced peptides for 'maximum homology' is to be encouraged.

Jukes, T. H.↗
NASA NTRS1973

An analytic study of near terminal area optimal sequencing and flow control techniques

Optimal flow control and sequencing of air traffic operations in the near terminal area are discussed. The near terminal area model is based on the assumptions that the aircraft enter the terminal area along precisely controlled approach paths and that the aircraft are segregated according to their near terminal area performance. Mathematical models are developed to support the optimal path generation, sequencing, and conflict resolution problems.

Park, S. K.↗
NASA NTRS1972

Sequence data - Magnitude and implications of some ambiguities.

A stochastic model is applied to the divergence of the horse-pig lineage from a common ansestor in terms of the alpha and beta chains of hemoglobin and fibrinopeptides. The results are compared with those based on the minimum mutation distance model of Fitch (1972). Buckwheat and cauliflower cytochrome c sequences are analyzed to demonstrate their ambiguities. A comparative analysis of evolutionary rates for various proteins of horses and pigs shows that errors of considerable magnitude are introduced by Glx and Asx ambiguities into evolutionary conclusions drawn from sequences of incompletely analyzed proteins.

Holmquist, R.↗
NASA NTRS1973

A sequence solution to the Fokker-Planck equation.

In this paper a new approach to nonlinear system analysis based on the Fokker-Planck equation is developed. The development begins as a modification of the parametrix method of partial differential equation theory and provides a sequence solution to the multidimensional time-varying Fokker-Planck equation. This sequence is simplified for the case where only a steady-state solution or a solution for the variance of a particular combination of states is desired. Equations are presented in a form suitable for obtaining numerical results using a digital computer.

Mayfield, W. W.↗
NASA NTRS1973

Alternate multiple-outer-planet missions using a Saturn-Jupiter flyby sequence

A study has been made of a method for providing more frequent launch opportunities for multiple-planet Grand Tour type missions to the outer solar system. A Saturn-Jupiter flyby sequence was used in the analysis to initiate the mission instead of the normal Jupiter-Saturn sequence. The Saturn-first approach is shown to yield several new launch opportunities following the 1980 cutoff date for Jupiter-first missions. Results are given for various two-planet, three-planet, and four-planet Jupiter-first and Saturn-first missions. A unique five-planet Saturn-first mission and a Saturn-Jupiter flyby which returns to earth are also discussed. Mission performance is evaluated for each flyby technique by comparing Saturn-first and Jupiter-first missions with respect to launch energy requirements, available launch windows, planetary encounter conditions, and total mission times.

Young, J. W.↗
NASA NTRS1969

On the auto and cross correlation of PN sequences

The autocorrelation and crosscorrelation properties of pseudorandom (PN) sequences are analyzed by using some important properties of PN sequences. These properties make this discussion understandable without the need of linear algebraic approach. The analysis is followed by some experimental results.

Morakis, J. C.↗
NASA NTRS1973

Recently published protein sequences. III

A listing of polypeptide sequences announced in published papers in 1972 and 1973 is given. The listing contains twenty one new sequencies which were selected by using the distinction of Asn, Asp, Gln, and Glu from Asx and Glx, and the absence of unsequenced peptides as criteria.

Jukes, T. H.↗
NASA NTRS1974

Transitions 2s/2/ 2p/k/ - 2s 2p/k+1/ of the F I, O I, and N I isoelectronic sequences

Transitions of the type 2s/2/ 2p/k/ - 2s 2p/k+1/ have been identified for the elements from titanium through nickel for ions of the fluorine, oxygen, and nitrogen isoelectronic sequences. Wavelengths, visual intensity estimates, and energies are given. The energy differences of levels of the ground configuration are compared with predictions based on semiempirical equations derived by Edlen. Some of the lines of these isoelectronic sequences should be strong lines in solar-flare spectra.

Doschek, G. A.↗
NASA NTRS1974

Main sequence models for massive zero-metal stars

Zero-age main-sequence models for stars of 20, 10, 5, and 2 solar masses with no heavy elements are constructed for three different possible primordial helium abundances: Y=0.00, Y=0.23, and Y=0.30. The latter two values of Y bracket the range of primordial helium abundances cited by Wagoner. With the exceptions of the two 20 solar mass models that contain helium, these models are found to be self-consistent in the sense that the formation of carbon through the triple-alpha process during premain sequence contraction is not sufficient to bring the CN cycle into competition with the proton-proton chain on the ZAMS. The zero-metal models of the present study have higher surface and central temperatures, higher central densities, smaller radii, and smaller convective cores than do the population I models with the same masses.

Cary, N.↗