TY  - JOUR
A1  - Noonan, Michael J.
A1  - Tucker, Marlee A.
A1  - Fleming, Christen H.
A1  - Akre, Thomas S.
A1  - Alberts, Susan C.
A1  - Ali, Abdullahi H.
A1  - Altmann, Jeanne
A1  - Antunes, Pamela Castro
A1  - Belant, Jerrold L.
A1  - Beyer, Dean
A1  - Blaum, Niels
A1  - Boehning-Gaese, Katrin
A1  - Cullen Jr, Laury
A1  - de Paula, Rogerio Cunha
A1  - Dekker, Jasja
A1  - Drescher-Lehman, Jonathan
A1  - Farwig, Nina
A1  - Fichtel, Claudia
A1  - Fischer, Christina
A1  - Ford, Adam T.
A1  - Goheen, Jacob R.
A1  - Janssen, Rene
A1  - Jeltsch, Florian
A1  - Kauffman, Matthew
A1  - Kappeler, Peter M.
A1  - Koch, Flavia
A1  - LaPoint, Scott
A1  - Markham, A. Catherine
A1  - Medici, Emilia Patricia
A1  - Morato, Ronaldo G.
A1  - Nathan, Ran
A1  - Oliveira-Santos, Luiz Gustavo R.
A1  - Olson, Kirk A.
A1  - Patterson, Bruce D.
A1  - Paviolo, Agustin
A1  - Ramalho, Emiliano Estero
A1  - Rosner, Sascha
A1  - Schabo, Dana G.
A1  - Selva, Nuria
A1  - Sergiel, Agnieszka
A1  - da Silva, Marina Xavier
A1  - Spiegel, Orr
A1  - Thompson, Peter
A1  - Ullmann, Wiebke
A1  - Zieba, Filip
A1  - Zwijacz-Kozica, Tomasz
A1  - Fagan, William F.
A1  - Mueller, Thomas
A1  - Calabrese, Justin M.
T1  - A comprehensive analysis of autocorrelation and bias in home range estimation
JF  - Ecological monographs : a publication of the Ecological Society of America.
N2  - Home range estimation is routine practice in ecological research. While advances in animal tracking technology have increased our capacity to collect data to support home range analysis, these same advances have also resulted in increasingly autocorrelated data. Consequently, the question of which home range estimator to use on modern, highly autocorrelated tracking data remains open. This question is particularly relevant given that most estimators assume independently sampled data. Here, we provide a comprehensive evaluation of the effects of autocorrelation on home range estimation. We base our study on an extensive data set of GPS locations from 369 individuals representing 27 species distributed across five continents. We first assemble a broad array of home range estimators, including Kernel Density Estimation (KDE) with four bandwidth optimizers (Gaussian reference function, autocorrelated‐Gaussian reference function [AKDE], Silverman's rule of thumb, and least squares cross‐validation), Minimum Convex Polygon, and Local Convex Hull methods. Notably, all of these estimators except AKDE assume independent and identically distributed (IID) data. We then employ half‐sample cross‐validation to objectively quantify estimator performance, and the recently introduced effective sample size for home range area estimation ( N̂ area
) to quantify the information content of each data set. We found that AKDE 95% area estimates were larger than conventional IID‐based estimates by a mean factor of 2. The median number of cross‐validated locations included in the hold‐out sets by AKDE 95% (or 50%) estimates was 95.3% (or 50.1%), confirming the larger AKDE ranges were appropriately selective at the specified quantile. Conversely, conventional estimates exhibited negative bias that increased with decreasing N̂ area. To contextualize our empirical results, we performed a detailed simulation study to tease apart how sampling frequency, sampling duration, and the focal animal's movement conspire to affect range estimates. Paralleling our empirical results, the simulation study demonstrated that AKDE was generally more accurate than conventional methods, particularly for small N̂ area. While 72% of the 369 empirical data sets had >1,000 total observations, only 4% had an N̂ area >1,000, where 30% had an N̂ area <30. In this frequently encountered scenario of small N̂ area, AKDE was the only estimator capable of producing an accurate home range estimate on autocorrelated data.
KW  - animal movement
KW  - kernel density estimation
KW  - local convex hull
KW  - minimum convex polygon
KW  - range distribution
KW  - space use
KW  - telemetry
KW  - tracking data
Y1  - 2018
U6  - https://doi.org/10.1002/ecm.1344
SN  - 0012-9615
SN  - 1557-7015
VL  - 89
IS  - 2
PB  - Wiley
CY  - Hoboken
ER  - 
TY  - JOUR
A1  - Barbosa, Luis Romero A.
A1  - Coelho, Victor Hugo R.
A1  - Gusmao, Ana Claudia V. L. F.
A1  - Fernandes, Lucila A. E.
A1  - da Silva, Bernardo B.
A1  - Galvao, Carlos de O.
A1  - Caicedo, Nelson O. L.
A1  - da Paz, Adriano R.
A1  - Xuan, Yunqing
A1  - Bertrand, Guillaume F.
A1  - Melo, Davi de C. D.
A1  - Montenegro, Suzana M. G. L.
A1  - Oswald, Sascha
A1  - Almeida, Cristiano das N.
T1  - A satellite-based approach to estimating spatially distributed groundwater recharge rates in a tropical wet sedimentary region despite cloudy conditions
JF  - Journal of hydrology
N2  - Groundwater recharge (GWR) is one of the most challenging water fluxes to estimate, as it relies on observed data that are often limited in many developing countries. 
This study developed an innovative water budget method using satellite products for estimating the spatially distributed GWR at monthly and annual scales in tropical wet sedimentary regions despite cloudy conditions. 

The distinctive features proposed in this study include the capacity to address 1) evapotranspiration estimations in tropical wet regions frequently overlaid by substantial cloud cover; and 2) seasonal root-zone water storage estimations in sedimentary regions prone to monthly variations. 

The method also utilises satellite-based information of the precipitation and surface runoff. The GWR was estimated and validated for the hydrologically contrasting years 2016 and 2017 over a tropical wet sedimentary region located in North-eastern Brazil, which has substantial potential for groundwater abstraction. 

This study showed that applying a cloud-cleaning procedure based on monthly compositions of biophysical data enables the production of a reasonable proxy for evapotranspiration able to estimate groundwater by the water budget method. 
The resulting GWR rates were 219 (2016) and 302 (2017) mm yr(-1), showing good correlations (CC = 0.68 to 0.83) and slight underestimations (PBIAS =-13 to-9%) when compared with the referenced estimates obtained by the water table fluctuation method for 23 monitoring wells. Sensitivity analysis shows that water storage changes account for +19% to-22% of our monthly evaluation. 

The satellite-based approach consistently demonstrated that the consideration of cloud-cleaned evapotranspiration and root-zone soil water storage changes are essential for a proper estimation of spatially distributed GWR in tropical wet sedimentary regions because of their weather seasonality and cloudy conditions.
KW  - remote sensing
KW  - water balance
KW  - groundwater recharge
KW  - water table
KW  - fluctuation
KW  - tropical climate
KW  - sedimentary aquifer
Y1  - 2022
U6  - https://doi.org/10.1016/j.jhydrol.2022.127503
SN  - 0022-1694
SN  - 1879-2707
VL  - 607
PB  - Elsevier
CY  - Amsterdam
ER  - 
TY  - JOUR
A1  - Nunes-Nesi, Adriano
A1  - Alseekh, Saleh
A1  - de Oliveira Silva, Franklin Magnum
A1  - Omranian, Nooshin
A1  - Lichtenstein, Gabriel
A1  - Mirnezhad, Mohammad
A1  - Romero Gonzalez, Roman R.
A1  - Sabio y Garcia, Julia
A1  - Conte, Mariana
A1  - Leiss, Kirsten A.
A1  - Klinkhamer, Peter Gerardus Leonardus
A1  - Nikoloski, Zoran
A1  - Carrari, Fernando
A1  - Fernie, Alisdair R.
T1  - Identification and characterization of metabolite quantitative trait loci in tomato leaves and comparison with those reported for fruits and seeds
JF  - Metabolomics
N2  - IntroductionTo date, most studies of natural variation and metabolite quantitative trait loci (mQTL) in tomato have focused on fruit metabolism, leaving aside the identification of genomic regions involved in the regulation of leaf metabolism.ObjectiveThis study was conducted to identify leaf mQTL in tomato and to assess the association of leaf metabolites and physiological traits with the metabolite levels from other tissues.MethodsThe analysis of components of leaf metabolism was performed by phenotypying 76 tomato ILs with chromosome segments of the wild species Solanum pennellii in the genetic background of a cultivated tomato (S. lycopersicum) variety M82. The plants were cultivated in two different environments in independent years and samples were harvested from mature leaves of non-flowering plants at the middle of the light period. The non-targeted metabolite profiling was obtained by gas chromatography time-of-flight mass spectrometry (GC-TOF-MS). With the data set obtained in this study and already published metabolomics data from seed and fruit, we performed QTL mapping, heritability and correlation analyses.ResultsChanges in metabolite contents were evident in the ILs that are potentially important with respect to stress responses and plant physiology. By analyzing the obtained data, we identified 42 positive and 76 negative mQTL involved in carbon and nitrogen metabolism.ConclusionsOverall, these findings allowed the identification of S. lycopersicum genome regions involved in the regulation of leaf primary carbon and nitrogen metabolism, as well as the association of leaf metabolites with metabolites from seeds and fruits.
KW  - Metabolite QTL
KW  - Tomato
KW  - Leaf metabolism
KW  - Metabolite network
Y1  - 2019
U6  - https://doi.org/10.1007/s11306-019-1503-8
SN  - 1573-3882
SN  - 1573-3890
VL  - 15
IS  - 46
PB  - Springer
CY  - New York
ER  - 
TY  - JOUR
A1  - Medrano-T., R. O.
A1  - Baptista, Murilo da Silva
A1  - Caldas, Ibere Luiz
T1  - Shilnikov homoclinic orbit bifurcations in the Chua’s circuit
JF  - Chaos : an interdisciplinary journal of nonlinear science
N2  - We analytically describe the complex scenario of homoclinic bifurcations in the Chua’s circuit. We obtain a general scaling law that gives the ratio between bifurcation parameters of different nearby homoclinic orbits. As an application of this theoretical approach, we estimate the number of higher order subsidiary homoclinic orbits that appear between two consecutive lower order subsidiary orbits. Our analytical finds might be valid for a large class of dynamical systems and are numerically confirmed in the parameter space of the Chua’s circuit.
Shilnikov homoclinic orbits are trajectories that depart from a fixed saddle-focus point, with specific eigenvalues, and return to it after an infinite amount of time (that is also true to time reversal evolution). That results in an orbit that is unstable and has an infinite period. These two main characteristics contribute in the hardness for its observation in a dynamical system as well as in nature. However, its presence reveals fundamental characteristics of the system involved, as the existence of unstable periodic orbits embedded in a chaotic set. Once the unstable periodic orbits give invariants quantities of this set,1 the Shilnikov homoclinic orbits are also related to the characteristics of the chaotic set. Their connection with the fundamental dynamical properties is verified in a wide variety of systems. A series of numerical and experimental investigations reveal how Shilnikov homoclinic orbits, in the vicinity of a chaotic attractor, determine its dynamical and topological properties.4 Thus, the Shilnikov orbits are related to the returning time of the trajectory of a CO2 laser,5 also to the topology of a glow-discharge system.6 Moreover, some class of spiking neurons are modeled by chaos governed by such orbits,7,8 and their presence are connected to the intermittence present in rabbit arteries.9 These orbits are shown to be behind the mechanism of noise-induced phenomena,10 and they are also responsible for the dynamics of an electrochemical oscillator.11 In this work, we contribute to the understanding of how Shilnikov homoclinic orbits appear on the parameter space of systems as the ones above mentioned, by showing that these orbits are not only distributed following an universal rule but also exist for large parameter variations. We then confirm our previsions in the Chua’s circuit system
Y1  - 2006
U6  - https://doi.org/10.1063/1.2401060
SN  - 1054-1500
VL  - 16
IS  - 4
PB  - American Institute of Physics
CY  - Melville
ER  - 
TY  - JOUR
A1  - van der Valk, Ralf J. P.
A1  - Kreiner-Moller, Eskil
A1  - Kooijman, Marjolein N.
A1  - Guxens, Monica
A1  - Stergiakouli, Evangelia
A1  - Saaf, Annika
A1  - Bradfield, Jonathan P.
A1  - Geller, Frank
A1  - Hayes, M. Geoffrey
A1  - Cousminer, Diana L.
A1  - Koerner, Antje
A1  - Thiering, Elisabeth
A1  - Curtin, John A.
A1  - Myhre, Ronny
A1  - Huikari, Ville
A1  - Joro, Raimo
A1  - Kerkhof, Marjan
A1  - Warrington, Nicole M.
A1  - Pitkanen, Niina
A1  - Ntalla, Ioanna
A1  - Horikoshi, Momoko
A1  - Veijola, Riitta
A1  - Freathy, Rachel M.
A1  - Teo, Yik-Ying
A1  - Barton, Sheila J.
A1  - Evans, David M.
A1  - Kemp, John P.
A1  - St Pourcain, Beate
A1  - Ring, Susan M.
A1  - Smith, George Davey
A1  - Bergstrom, Anna
A1  - Kull, Inger
A1  - Hakonarson, Hakon
A1  - Mentch, Frank D.
A1  - Bisgaard, Hans
A1  - Chawes, Bo Lund Krogsgaard
A1  - Stokholm, Jakob
A1  - Waage, Johannes
A1  - Eriksen, Patrick
A1  - Sevelsted, Astrid
A1  - Melbye, Mads
A1  - van Duijn, Cornelia M.
A1  - Medina-Gomez, Carolina
A1  - Hofman, Albert
A1  - de Jongste, Johan C.
A1  - Taal, H. Rob
A1  - Uitterlinden, Andre G.
A1  - Armstrong, Loren L.
A1  - Eriksson, Johan
A1  - Palotie, Aarno
A1  - Bustamante, Mariona
A1  - Estivill, Xavier
A1  - Gonzalez, Juan R.
A1  - Llop, Sabrina
A1  - Kiess, Wieland
A1  - Mahajan, Anubha
A1  - Flexeder, Claudia
A1  - Tiesler, Carla M. T.
A1  - Murray, Clare S.
A1  - Simpson, Angela
A1  - Magnus, Per
A1  - Sengpiel, Verena
A1  - Hartikainen, Anna-Liisa
A1  - Keinanen-Kiukaanniemi, Sirkka
A1  - Lewin, Alexandra
A1  - Alves, Alexessander Da Silva Couto
A1  - Blakemore, Alexandra I. F.
A1  - Buxton, Jessica L.
A1  - Kaakinen, Marika
A1  - Rodriguez, Alina
A1  - Sebert, Sylvain
A1  - Vaarasmaki, Marja
A1  - Lakka, Timo
A1  - Lindi, Virpi
A1  - Gehring, Ulrike
A1  - Postma, Dirkje S.
A1  - Ang, Wei
A1  - Newnham, John P.
A1  - Lyytikainen, Leo-Pekka
A1  - Pahkala, Katja
A1  - Raitakari, Olli T.
A1  - Panoutsopoulou, Kalliope
A1  - Zeggini, Eleftheria
A1  - Boomsma, Dorret I.
A1  - Groen-Blokhuis, Maria
A1  - Ilonen, Jorma
A1  - Franke, Lude
A1  - Hirschhorn, Joel N.
A1  - Pers, Tune H.
A1  - Liang, Liming
A1  - Huang, Jinyan
A1  - Hocher, Berthold
A1  - Knip, Mikael
A1  - Saw, Seang-Mei
A1  - Holloway, John W.
A1  - Melen, Erik
A1  - Grant, Struan F. A.
A1  - Feenstra, Bjarke
A1  - Lowe, William L.
A1  - Widen, Elisabeth
A1  - Sergeyev, Elena
A1  - Grallert, Harald
A1  - Custovic, Adnan
A1  - Jacobsson, Bo
A1  - Jarvelin, Marjo-Riitta
A1  - Atalay, Mustafa
A1  - Koppelman, Gerard H.
A1  - Pennell, Craig E.
A1  - Niinikoski, Harri
A1  - Dedoussis, George V.
A1  - Mccarthy, Mark I.
A1  - Frayling, Timothy M.
A1  - Sunyer, Jordi
A1  - Timpson, Nicholas J.
A1  - Rivadeneira, Fernando
A1  - Bonnelykke, Klaus
A1  - Jaddoe, Vincent W. V.
T1  - A novel common variant in DCST2 is associated with length in early life and height in adulthood
JF  - Human molecular genetics
N2  - Common genetic variants have been identified for adult height, but not much is known about the genetics of skeletal growth in early life. To identify common genetic variants that influence fetal skeletal growth, we meta-analyzed 22 genome-wide association studies (Stage 1; N = 28 459). We identified seven independent top single nucleotide polymorphisms (SNPs) (P < 1 x 10(-6)) for birth length, of which three were novel and four were in or near loci known to be associated with adult height (LCORL, PTCH1, GPR126 and HMGA2). The three novel SNPs were followed-up in nine replication studies (Stage 2; N = 11 995), with rs905938 in DC-STAMP domain containing 2 (DCST2) genome-wide significantly associated with birth length in a joint analysis (Stages 1 + 2; beta = 0.046, SE = 0.008, P = 2.46 x 10(-8), explained variance = 0.05%). Rs905938 was also associated with infant length (N = 28 228; P = 5.54 x 10(-4)) and adult height (N = 127 513; P = 1.45 x 10(-5)). DCST2 is a DC-STAMP-like protein family member and DC-STAMP is an osteoclast cell-fusion regulator. Polygenic scores based on 180 SNPs previously associated with human adult stature explained 0.13% of variance in birth length. The same SNPs explained 2.95% of the variance of infant length. Of the 180 known adult height loci, 11 were genome-wide significantly associated with infant length (SF3B4, LCORL, SPAG17, C6orf173, PTCH1, GDF5, ZNFX1, HHIP, ACAN, HLA locus and HMGA2). This study highlights that common variation in DCST2 influences variation in early growth and adult height.
Y1  - 2015
U6  - https://doi.org/10.1093/hmg/ddu510
SN  - 0964-6906
SN  - 1460-2083
VL  - 24
IS  - 4
SP  - 1155
EP  - 1168
PB  - Oxford Univ. Press
CY  - Oxford
ER  - 
TY  - JOUR
A1  - Denton, Richard E.
A1  - Ofman, L.
A1  - Shprits, Yuri Y.
A1  - Bortnik, J.
A1  - Millan, R. M.
A1  - Rodger, C. J.
A1  - da Silva, C. L.
A1  - Rogers, B. N.
A1  - Hudson, M. K.
A1  - Liu, K.
A1  - Min, K.
A1  - Glocer, A.
A1  - Komar, C.
T1  - Pitch Angle Scattering of Sub-MeV Relativistic Electrons by Electromagnetic Ion Cyclotron Waves
JF  - Journal of geophysical research : Space physics
N2  - Electromagnetic ion cyclotron (EMIC) waves have long been considered to be a significant loss mechanism for relativistic electrons. This has most often been attributed to resonant interactions with the highest amplitude waves. But recent observations have suggested that the dominant energy of electrons precipitated to the atmosphere may often be relatively low, less than 1 MeV, whereas the minimum resonant energy of the highest amplitude waves is often greater than 2 MeV. Here we use relativistic electron test particle simulations in the wavefields of a hybrid code simulation of EMIC waves in dipole geometry in order to show that significant pitch angle scattering can occur due to interaction with low-amplitude short-wavelength EMIC waves. In the case we examined, these waves are in the H band (at frequencies above the He+ gyrofrequency), even though the highest amplitude waves were in the He band frequency range (below the He+ gyrofrequency). We also present wave power distributions for 29 EMIC simulations in straight magnetic field line geometry that show that the high wave number portion of the spectrum is in every case mostly due to the H band waves. Though He band waves are often associated with relativistic electron precipitation, it is possible that the He band waves do not directly scatter the sub-megaelectron volts (sub-MeV) electrons, but that the presence of He band waves is associated with high plasma density which lowers the minimum resonant energy so that these electrons can more easily resonate with the H band waves.
KW  - electromagnetic ion cyclotron waves
KW  - EMIC
KW  - relativistic electron precipitation
KW  - pitch angle scattering
KW  - wave particle interaction
KW  - radiation belts
Y1  - 2019
U6  - https://doi.org/10.1029/2018JA026384
SN  - 2169-9402
VL  - 124
IS  - 7
SP  - 5610
EP  - 5626
PB  - American Geophysical Union
CY  - Washington
ER  - 
TY  - JOUR
A1  - Weyhenmeyer, Gesa A.
A1  - Mackay, Murray
A1  - Stockwell, Jason D.
A1  - Thiery, Wim
A1  - Grossart, Hans-Peter
A1  - Augusto-Silva, Petala B.
A1  - Baulch, Helen M.
A1  - de Eyto, Elvira
A1  - Hejzlar, Josef
A1  - Kangur, Kuelli
A1  - Kirillin, Georgiy
A1  - Pierson, Don C.
A1  - Rusak, James A.
A1  - Sadro, Steven
A1  - Woolway, R. Iestyn
T1  - Citizen science shows systematic changes in the temperature difference between air and inland waters with global warming
JF  - Scientific reports
N2  - Citizen science projects have a long history in ecological studies. The research usefulness of such projects is dependent on applying simple and standardized methods. Here, we conducted a citizen science project that involved more than 3500 Swedish high school students to examine the temperature difference between surface water and the overlying air (T-w-T-a) as a proxy for sensible heat flux (Q(H)). If Q(H) is directed upward, corresponding to positive T-w-T-a, it can enhance CO2 and CH4 emissions from inland waters, thereby contributing to increased greenhouse gas concentrations in the atmosphere. The students found mostly negative T-w-T-a across small ponds, lakes, streams/rivers and the sea shore (i.e. downward Q(H)), with T-w-T-a becoming increasingly negative with increasing T-a. Further examination of T-w-T-a using high-frequency temperature data from inland waters across the globe confirmed that T-w-T-a is linearly related to T-a. Using the longest available high-frequency temperature time series from Lake Erken, Sweden, we found a rapid increase in the occasions of negative T-w-T-a with increasing annual mean T-a since 1989. From these results, we can expect that ongoing and projected global warming will result in increasingly negative T-w-T-a, thereby reducing CO2 and CH4 transfer velocities from inland waters into the atmosphere.
Y1  - 2017
U6  - https://doi.org/10.1038/srep43890
SN  - 2045-2322
VL  - 7
PB  - Nature Publ. Group
CY  - London
ER  -