C9orf72 hexanucleotide repeat length in older population: normal variation and effects on cognition

The hexanucleotide repeat expansion in C9orf72 is a common cause of amyotrophic lateral sclerosis/frontotemporal dementia and also rarely found in other psychiatric and neurodegenerative conditions. Alleles with >30 repeats are often considered an expansion, but the pathogenic repeat length threshold is still unclear. It is also unclear whether intermediate repeat length alleles (often defined either as 7-30 or 20-30 repeats) have clinically significant effects. We determined the C9orf72 repeat length distribution in 3142 older Finns (aged 60-104 years). The longest nonexpanded allele was 45 repeats. We found 7-45 repeats in 1036/3142 (33%) individuals, 20-45 repeats in 56/3142 (1.8%), 30-45 repeats in 12/3142 (0.38%), and expansion (>45 repeats) in 6/3142 (0.19%). There was no apparent clustering of neurodegenerative or psychiatric diseases in individuals with 30-45 repeats indicating that 30-45 repeats are not pathogenic. None of the 6 expansion carriers had a diagnosis of amyotrophic lateral sclerosis/frontotemporal dementia but 4 had a diagnosis of a neurodegenerative or psychiatric disease. Intermediate length alleles (categorized as 7-45 and 20-45 repeats) did not associate with Alzheimer's disease or cognitive impairment. (C) 2019 The Author(s). Published by Elsevier Inc.Peer reviewe

Fine-mapping of the Rpt5 net blotch resistance gene region in barley

Poster

Heterozygous TYROBP deletion (PLOSLFIN) is not a strong risk factor for cognitive impairment

Biallelic loss-of-function mutations in TYROBP and TREM2 cause a rare disease that resembles early-onset frontotemporal dementia with bone lesions called polycystic lipomembranous osteodysplasia with sclerosing leukoencephalopathy (PLOSL). Some PLOSL-causing variants in TREM2 have also been associated with Alzheimer's disease when heterozygous. Here, we studied the PLOSLFIN TYROBP deletion that covers 4 of the gene's 5 exons. We genotyped 3220 older Finns (mean age 79, range 58-104) and found 11 deletion carriers (mean age 78, range 60-94). The carrier prevalence was 0.0034 (1 in 293) that matches previous findings in younger cohorts suggesting no significant early mortality. By comparing Mini-Mental State Examination (MMSE) scores and diagnoses of dementia, we did not find any significant differences between TYROBP deletion carriers and noncarriers (all p-values >0.5). Neuropathological analysis of 2 deletion carriers (aged 89 and 94 years) demonstrated only minimal beta amyloid pathology (Consortium to Establish a Registry for Alzheimer's Disease (CERAD) score 0). Collectively these results suggest that heterozygous carriership of the TYROBP deletion is not a major risk factor of cognitive impairment. (C) 2017 Elsevier Inc. All rights reserved.Peer reviewe

Putative risk alleles for LATE-NC with hippocampal sclerosis in population-representative autopsy cohorts

Limbic-predominant age-related TAR-DNA-binding protein-43 (TDP-43) encephalopathy with hippocampal sclerosis pathology (LATE-NC + HS) is a neurodegenerative disorder characterized by severe hippocampal CA1 neuron loss and TDP-43-pathology, leading to cognitive dysfunction and dementia. Polymorphisms in GRN, TMEM106B and ABCC9 are proposed as LATE-NC + HS risk factors in brain bank collections. To replicate these results in independent population-representative cohorts, hippocampal sections from brains donated to three such studies (Cambridge City over 75-Cohort [CC75C], Cognitive Function and Ageing Study [CFAS], and Vantaa 85+ Study) were stained with hematoxylin-eosin (n = 744) and anti-pTDP-43 (n = 713), and evaluated for LATE-NC + HS and TDP-43 pathology. Single nucleotide polymorphism genotypes in GRN rs5848, TMEM106B rs1990622 and ABCC9 rs704178 were determined. LATE-NC + HS (n = 58) was significantly associated with the GRN rs5848 genotype (chi(2)(2) = 20.61, P <0.001) and T-allele (chi(2)(1) = 21.04, P <0.001), and TMEM106B rs1990622 genotype (Fisher's exact test, P <0.001) and A-allele (chi(2)(1) = 25.75, P <0.001). No differences in ABCC9 rs704178 genotype or allele frequency were found between LATE-NC + HS and non-LATE-NC + HS neuropathology cases. Dentate gyrus TDP-43 pathology associated with GRN and TMEM106B variations, but the association with TMEM106B nullified when LATE-NC + HS cases were excluded. Our results indicate that GRN and TMEM106B are associated with severe loss of CA1 neurons in the aging brain, while ABCC9 was not confirmed as a genetic risk factor for LATE-NC + HS. The association between TMEM106B and LATE-NC + HS may be independent of dentate TDP-43 pathology.Peer reviewe

Reaction rate reconstruction from biomass concentration measurement in bioreactors using modified second-order sliding mode algorithms

This paper deals with the estimation of unknown signals in bioreactors using sliding observers. Particular attention is drawn to estimate the specific growth rate of microorganisms from measurement of biomass concentration. In a recent article, notions of high-order sliding modes have been used to derive a growth rate observer for batch processes. In this paper we generalize and refine these preliminary results. We develop a new observer with a different error structure to cope with other types of processes. Furthermore, we show that these observers are equivalent, under coordinate transformations and time scaling, to the classical super-twisting differentiator algorithm, thus inheriting all its distinctive features. The new observers’ family achieves convergence to timevarying unknown signals in finite time, and presents the best attainable estimation error order in the presence of noise. In addition, the observers are robust to modeling and parameter uncertainties since they are based on minimal assumptions on bioprocess dynamics. In addition, they have interesting applications in fault detection and monitoring. The observers performance in batch, fed-batch and continuous bioreactors is assessed by experimental data obtained from the fermentation of Saccharomyces Cerevisiae on glucose.This work was supported by the National University of La Plata (Project 2012-2015), the Agency for the Promotion of Science and Technology ANPCyT (PICT2007-00535) and the National Research Council CONICET (PIP112-200801-01052) of Argentina; the Technical University of Valencia (PAID-02-09), the CICYT (DPI2005-01180) and AECID (A/024186/09) of Spain; and by the project FEDER of the European Union.De Battista, H.; Picó Marco, JA.; Garelli, F.; Navarro Herrero, JL. (2012). Reaction rate reconstruction from biomass concentration measurement in bioreactors using modified second-order sliding mode algorithms. Bioprocess and Biosystems Engineering. 35(9):1-11. https://doi.org/10.1007/s00449-012-0752-yS111359Aborhey S, Williamson D (1978) State amd parameter estimation of microbial growth process. Automatica 14:493–498Bastin G, Dochain D (1986) On-line estimation of microbial specific growth rates. Automatica 22:705–709Bastin G, Dochain D (1990) On-line estimation and adaptive control of bioreactors. Elsevier, AmsterdamBejarano F, Fridman L (2009) Unbounded unknown inputs estimation based on high-order sliding mode differentiator. In: Proceedings of the 48th IEEE conference on decision and control, pp 8393–8398Corless M, Tu J (1998) State and input estimation for a class of uncertain systems. Automatica 34(6):757–764Dabros M, Schler M, Marison I (2010) Simple control of specific growth rate in biotechnological fed-batch processes based on enhanced online measurements of biomass. Bioprocess Biosyst Eng 33:1109–1118Davila A, Moreno J, Fridman L (2010) Variable gains super-twisting algorithm: a lyapunov based design. In: American control conference (ACC), 2010, pp 968–973Dávila J, Fridman L, Levant A (2005) Second-order sliding-mode observer for mechanical systems. IEEE Transact Automatic Control 50(11):1785–1789De Battista H, Picó J, Garelli F, Vignoni A (2011) Specific growth rate estimation in (fed-)batch bioreactors using second-order sliding observers. J Process Control 21:1049–1055Dochain D (2001) Bioprocess control. Wiley, HobokenDochain D (2003) State and parameter estimation in chemical and biochemical processes: a tutorial. J Process Control 13(8):801–818Edwards C, Spurgeon S, Patton R (2000) Sliding mode observers for fault detection and isolation. Automatica 36(2):541–553Evangelista C, Puleston P, Valenciaga F, Fridman L (2012) Lyapunov designed super-twisting sliding mode control for wind energy conversion optimization. Indus Electron IEEE Transact. doi: 10.1109/TIE.2012.2188256Farza M, Busawon K, Hammouri H (1998) Simple nonlinear observers for on-line estimation of kinetic rates in bioreactors. Automatica 34(3):301–318Fridman L, Davila J, Levant A (2008) High-order sliding modes observation. In: International workshop on variable structure systems, pp 203–208Fridman L, Levant A (2002) Sliding mode control in engineering, higher-order sliding modes. Marcel Dekker, Inc., New York, pp 53–101Fridman L, Shtessel Y, Edwards C, Yan X (2008) Higher-order sliding-mode observer for state estimation and input reconstruction in nonlinear systems. Int J Robust Nonlinear Control 18(3–4):399–412Gauthier J, Hammouri H, Othman S (1992) A simple observer for nonlinear systems: applications to bioreactors. IEEE Transact Automatic Control 37(6):875–880Gnoth S, Jenzsch M, Simutis R, Lubbert A (2008) Control of cultivation processes for recombinant protein production: a review. Bioprocess Biosyst Eng 31(1):21–39Hitzmann B, Broxtermann O, Cha Y, Sobieh O, Stärk E, Scheper T (2000) The control of glucose concentration during yeast fed-batch cultivation using a fast measurement complemented by an extended kalman filter. Bioprocess Eng 23(4):337–341Kiviharju K, Salonen K, Moilanen U, Eerikainen T (2008) Biomass measurement online: the performance of in situ measurements and software sensors. J Indus Microbiol Biotechnol 35(7):657–665Levant A (1998) Robust exact differentiation via sliding mode technique. Automatica 34(3):379–384Levant A (2003) Higher-order sliding modes, differentiation and output-feedback control. Int J Control 76(9/10):924–941Lubenova V, Rocha I, Ferreira E (2003) Estimation of multiple biomass growth rates and biomass concentration in a class of bioprocesses. Bioprocess Biosyst Eng 25:395–406Moreno J, Alvarez J, Rocha-Cozatl E, Diaz-Salgado J (2010) Super-twisting observer-based output feedback control of a class of continuous exothermic chemical reactors. In: Proceedings of the 9th IFAC international symposium on dynamics and control of process systems, pp 719–724. Leuven, BelgiumMoreno J, Osorio M (2008) A Lyapunov approach to second-order sliding mode controllers and observers. In: Proceedings of the 47th IEEE conference on decision and control. Cancún, México, pp 2856–2861Moreno J, Osorio M (2012) Strict Lyapunov functions for the super-twisting algorithm. IEEE Transact Automatic Control 57:1035–1040Navarro J, Picó J, Bruno J, Picó-Marco E, Vallés S (2001) On-line method and equipment for detecting, determining the evolution and quantifying a microbial biomass and other substances that absorb light along the spectrum during the development of biotechnological processes. Patent ES20010001757, EP20020751179Neeleman Boxtel (2001) Estimation of specific growth rate from cell density measurements. Bioprocess Biosyst Eng 24(3):179–185November E, van Impe J (2002) The tuning of a model-based estimator for the specific growth rate of Candidautilis. Bioprocess Biosyst Eng 25:1–12Park Y, Stein J (1988) Closed-loop, state and input observer for systems with unknown inputs. Int J Control 48(3):1121–1136Perrier M, de Azevedo SF, Ferreira E, Dochain D (2000) Tuning of observer-based estimators: theory and application to the on-line estimation of kinetic parameters. Control Eng Pract 8:377–388Picó J, De Battista H, Garelli F (2009) Smooth sliding-mode observers for specific growth rate and substrate from biomass measurement. J Process Control 19(8):1314–1323. Special section on hybrid systems: modeling, simulation and optimizationSchenk J, Balaszs K, Jungo C, Urfer J, Wegmann C, Zocchi A, Marison I, von Stockar U (2008) Influence of specific growth rate on specific productivity and glycosylation of a recombinant avidin produced by a Pichia pastoris Mut + strain. Biotecnol Bioeng 99(2):368–377Shtessel Y, Taleb M, Plestan F (2012) A novel adaptive-gain supertwisting sliding mode controller: Methodol Appl Automatica (in press)Soons Z, van Straten G, van der Pol L, van Boxtel A (2008) On line automatic tuning and control for fed-batch cultivation. Bioprocess Biosyst Eng 31(5):453–467Utkin V, Poznyak A, Ordaz P (2011) Adaptive super-twist control with minimal chattering effect. In: Proceedings of 50th IEEE conference on decision and control and European control conference. Orlando, pp 7009–7014Veloso A, Rocha I, Ferreira E (2009) Monitoring of fed-batch E. coli fermentations with software sensors. Bioprocess Biosyst Eng 32(3):381–388Venkateswarlu C (2004) Advances in monitoring and state estimation of bioreactors. J Sci Indus Res 63:491–498Zamboni N, Fendt S, Rühl M, Sauer U (2009) 13c-based metabolic flux analysis. Nat Protocols 4:878–892Zorzetto LFM, Wilson JA (1996) Monitoring bioprocesses using hybrid models and an extended kalman filter. Comput Chem Eng 20(Suppl 1):S689–S69

Triptolide Inhibits the Proliferation of Prostate Cancer Cells and Down-Regulates SUMO-Specific Protease 1 Expression

Recently, traditional Chinese medicine and medicinal herbs have attracted more attentions worldwide for its anti-tumor efficacy. Celastrol and Triptolide, two active components extracted from the Chinese herb Tripterygium wilfordii Hook F (known as Lei Gong Teng or Thunder of God Vine), have shown anti-tumor effects. Celastrol was identified as a natural 26 s proteasome inhibitor which promotes cell apoptosis and inhibits tumor growth. The effect and mechanism of Triptolide on prostate cancer (PCa) is not well studied. Here we demonstrated that Triptolide, more potent than Celastrol, inhibited cell growth and induced cell death in LNCaP and PC-3 cell lines. Triptolide also significantly inhibited the xenografted PC-3 tumor growth in nude mice. Moreover, Triptolide induced PCa cell apoptosis through caspases activation and PARP cleavage. Unbalance between SUMOylation and deSUMOylation was reported to play an important role in PCa progression. SUMO-specific protease 1 (SENP1) was thought to be a potential marker and therapeutical target of PCa. Importantly, we observed that Triptolide down-regulated SENP1 expression in both mRNA and protein levels in dose-dependent and time-dependent manners, resulting in an enhanced cellular SUMOylation in PCa cells. Meanwhile, Triptolide decreased AR and c-Jun expression at similar manners, and suppressed AR and c-Jun transcription activity. Furthermore, knockdown or ectopic SENP1, c-Jun and AR expression in PCa cells inhibited the Triptolide anti-PCa effects. Taken together, our data suggest that Triptolide is a natural compound with potential therapeutic value for PCa. Its anti-tumor activity may be attributed to mechanisms involving down-regulation of SENP1 that restores SUMOylation and deSUMOyaltion balance and negative regulation of AR and c-Jun expression that inhibits the AR and c-Jun mediated transcription in PCa

Anther culture properties of oat x wild red oat progenies and a search for RAPD markers associated with anther culture ability

A study was carried out to improve anther culture ability of the non-responsive cultivated oat, Avena sativa L. cv. Puhti by introgressing favourable alleles from the responsive wild red oat, Avena sterilis L. acc. CAV 2648. Anther culture ability of these parental lines and F2 progenies of their cross and two backcrosses was tested. Genotype effects were significant on all anther culture traits measured. The number of anther culture derived embryo-like structures was highest in acc. CAV 2648, and the number of green regenerants from the Puhti × CAV 2648 progeny. Anther culture response was greatly reduced in backcross progeny and was least in cv. Puhti. Random amplified polymorphic DNA (RAPD) was used to test for marker associations with oat anther culture traits in a population of 38 F2 progenies. Two RAPD markers were putatively associated with improved production of green regenerants (one derived from acc. CAV 2648 and the other from cv. Puhti). One marker putatively associated with decreased albino plant regeneration (derived from acc. CAV 2648). These markers might be useful for selecting alleles for better anther culture ability among progeny of planned crosses. In addition, three markers, derived from acc. CAV 2648, were putatively associated with decreased anther culture response rates.;Ponsiviljelyn avulla voidaan indusoida kypsymättömistäsiitepölyhiukkasista täysin homotsygoottisia kaksoishaploideja kasveja yhden sukupolven aikana. Tehokas haploidiajalostus hyödyntää tätä mahdollisuutta tuottaa vaihtelevista risteytysjälkeläisistä nopeasti täysin puhtaita linjoja. Kaksoishaploideja kasveja käytetään myös ominaisuuksien periytymisen tutkimiseen. Ponsiviljelyä rajoittaa kuitenkin sen onnistumisen vahva riippuvuus genotyypistä. Tätä ominaisuutta säätelevät useat riippumattomasti periytyvät geenit, jotka vaikuttavat prosessin eri vaiheissa määräten alkiorakenteiden induktiota, kasvien regeneroitumista sekä vihreiden ja albiinojen kasvien suhdetta. Kauran heksaploidin villin sukulaisen, susikauran (Avena sterilis L.) linja CAV 2648, on kokeissamme aiemmin tuottanut toistettavasti kaksoishaploideja kasveja. Kun ponsiviljelyssä täysin reagoimaton peltokauran (Avena sativa L.) lajike Puhti risteytettiin CAV 2648 linjan kanssa, vihreiden kasvien regeneroiminen jälkeläisistä onnistui. Tässä työssä tutkittiin mahdollisuutta tuoda susikaurasta peltokauraan ponsiviljelyä parantavia alleeleja risteytyksen ja kahden takaisinristeytyksen avulla. Lisäksi etsittiin ponsiviljelyyn kytkeytyneitä RAPD-geenimerkkejä, joiden avulla vaihtelevista risteytysjälkeläisistä voitaisiin tulevaisuudessa valita paremman ponsiviljeltävyyden omaavat linjat. Genotyypin havaittiin vaikuttavan kaikkiin testattuihin ponsiviljelyominaisuuksiin, joita olivat alkiorakenteiden induktio sekä vihreiden ja albiinojen kasvien erilaistuminen suhteessa ponsien määrään ja erilaistumisalustalle siirrostettujen alkiorakenteiden määrään. Eniten alkiorakenteita saatiin CAV 2648 linjasta, mutta vihreiden taimien regeneroituminen oli paras Puhti × CAV 2648 F2 risteytysjälkeläisistä. Ponsiviljelyn onnistuminen huononi nopeasti takaisinristeytyksissä, ja Puhti-lajike oli odotettavasti kaikkien mitattujen ominaisuuksien suhteen huonoin. Vanhempaisgenotyypit Puhti ja CAV 2648 testattiin 186 RAPD-alukkeella, joista 17 antoi elektroforeesigeelissä vanhempien välillä selvästi eriävän bändikuvion. Näiden 17 alukkeen tuottamat 53 geenimerkkiä testattiin 38:lla Puhti × CAV 2648 F2 kasvilla ja saatua dataa verrattiin samoista kasveista saatuun ponsiviljelydataan (jokaisesta kasvista 90 eristetystä ponnesta saadut ponsiviljelytulokset). Tilastoanalyysien perusteella neljän alukkeen tuottamat viisi geenimerkkiä olivat kytkeytyneet mitattuihin ponsiviljelyominaisuuksiin. Näistä OPX-11870 #NIMI? tuottoon eristetyistä ponsista ja OPC- 10480 -merkki oli kytkeytynyt sekä vihreiden että kaikkien regeneroitujen kasvien yhteenlaskettuun tuottoon suhteessa sekä eristettyihin ponsiin että siirrostettuihin alkiorakenteisiin. Näistä merkeistä ensin mainittu oli peräisin CAV 2648 linjasta ja toinen yllättäen heikon ponsiviljelyvasteen omaavasta Puhti-lajikkeesta. Kirjallisuuden perusteella tämä ei ole tavatonta, vaan positiivisesti vaikuttavia alleeleja voi periytyä myös huonomman vasteen omaavasta genotyypistä, koska ponsiviljelyvaste on monimutkaisesti säädelty ominaisuus. Lisäksi löydettiin kolme CAV 2648 linjasta periytyvää merkkiä, jotka olivat kytkeytyneet alhaisiin induktio- ja regeneraatiotasoihin. Yhteenvetona voidaan todeta, että risteyttämällä peltokaura paremmat ponsiviljelyominaisuudet omaavan susikauran kanssa, jälkeläisten kaksoishaploidituotto paranee verrattuna huonompaan vanhempaan. Takaisinristeytyksissä peltokauraan ominaisuus häviää kuitenkin nopeasti. Tutkimuksessa löydettyjä geenimerkkejä käyttäen voitaisiin risteytysjälkeläisistä valita jatkoon niitä genotyyppejä, joilla on perimässään parempiin ponsiviljelyominaisuuksiin johtavia alleeleja

Haplodiploid androgenetic breeding in oat: genotypic variation in anther size and microspore development stage Melhoramento por haplodiploidização androgenética: variação genotípica no tamanho das anteras e no estágio de desenvolvimento dos micrósporos em aveia

Oat (Avena spp.) is poorly responsive to the haplodiploidization process, which leads to the production of homozygous lines in one step, increasing breeding efficiency. Androgenetic haploids in small grain cereal crops are obtained from microspores cultured at the mononucleate stage, which can be identified by the size of anthers. In order to identify the appropriate anther size for in vitro culture, microspore cytological analyses were made in Avena sativa cultivars UPF 7, UPF 18, UFRGS 14, Stout and Avena sterilis CAV 3361, cultivated in growth chamber under controlled light and temperature conditions. Variation was observed within and among genotypes for anther size at each microspore developmental stage and according to the position of spikelets in the panicle. Architecture variation in panicle shape and non-linear microsporogenesis maturation increased the challenge of identifying potentially androgenetic oat anthers. Cytological screening before culture is critical in identifying microspores at the right stage for oat androgenesis.<br>A aveia (Avena spp.) tem sido pouco responsiva à haplodiploidização, um processo que aumenta a eficiência da seleção no melhoramento por gerar, em uma etapa, linhas puras homozigóticas. A fase mononucleada do micrósporo é critica para o sucesso da androgênese in vitro nos cereais de inverno e, em geral, pode ser inferida pelo tamanho da antera. Foram medidas anteras e analisados citológicamente micrósporos das cultivares de Avena sativa UPF 7, UPF 18, UFRGS 14, Stout e da linhagem CAV 3361 de Avena sterilis, cultivadas em câmaras de crescimento sob temperaturas dia-noite variando de 16ºC a 9ºC e 12 horas de intensidade luminosa de 300 mol m-2 s-1. O tamanho das anteras em cada fase de desenvolvimento dos micrósporos variou significativamente entre genótipos e de acordo com a região de inserção das espiguetas na panícula. A variação na arquitetura da panícula e a maturação não linear das espiguetas aumentam as dificuldades para a identificação das anteras potencialmente androgenéticas e podem explicar, em parte, os baixos resultados da androgênese na aveia. Os dados mostram a necessidade de uma análise citológica prévia para auxiliar a determinar a fase ideal de desenvolvimento dos micrósporos potencialmente responsivos à cultura de anteras, para o uso da androgenese na aveia