bluuebunny/crossref_metadata_2025_split huggingface dataset:
Local wisdom and archipelago agriculture: Poverty in Maluku
Authors: Pattinama M J , Nanere M G 
Published: July 2021

Abstract
Maluku is an archipelago province where its inhabitants mostly settle on small islands and conduct agricultural activities on very limited land with relatively low fertility rates. In such conditions, islanders’ local wisdom in Maluku is one of the cultural values that are still manifested in their life order, which is the social capital of archipelago communities. Local wisdom is derived from society’s knowledge and has a high social value in sustaining their lives when faced with all limitations and challenges. Islanders often face difficulties in marketing their agricultural products and limited transportation access to get a good education and health services. This has contributed to poverty among people living on small islands, as indicated by a poverty rate of 18.5%. Interestingly, local wisdom has been practised by communities for a long time when undertaking their agricultural activities. It is anticipated that global climate change also impacts agricultural practices undertaken by the islanders in Maluku. Therefore, this article’s objectives were to (1) analyze the form of local wisdom of islanders and its impact on sustainable archipelago agriculture development, (2) suggest ways to alleviate poverty in Maluku using local wisdom as social capital. The finding suggests that local wisdom’s value cannot be separated from the interactions between humans and their environment. This is a driving factor in the advancement of economic and socio-cultural aspects. Responsible marketing is another aspect that should be taken into account.
Flowering pattern and effective population size in cajuput clonal seed orchard in Yogyakarta, Indonesia
Authors: Kartikawati N K , Rimbawanto A , Putri A I 
Published: July 2021

Abstract
Clonal seed orchard (CSO) is established from superior trees vegetative material to produce the genetically improved seed. The flowering pattern and number of clone in CSO influence seed quality, genetic diversity and the possibility of inbreeding. The study aimed to determine the flowering pattern, identify effective population size and effective clone size in cajuput CSO. This was conducted in cajuput CSO in two sites, i.e. Gunungkidul and Sleman, during peak flowering. The cajuput CSO was established in a randomized complete block design using 30 clones in Sleman and Gunungkidul with five and eight replications, respectively. The flowering number of each individual, number of flowering ramet for each clone and number of capsule retention were recorded. The result showed that the clone performance (i.e., flowering and survival rate) in Sleman was better than in Gunungkidul. Two clones (i.e., number 14 of Provenance Suli, Ambon, and number 30 of Provenance Masarete, Moluccas) in Gunungkidul did not produce flower seed. The effective population size in Gunungkidul (Ne=26.20) is higher than in Sleman (Ne=25). However, the effective clone number in Gunungkidul (Nc=25) is lower than in Sleman (Nc=27). Genetic diversity in both CSOs is high (0.98). Therefore, the proportional mixing of seed collected from both CSO is essential to increase the genetic diversity and the realized genetic gain in deploying seeds for operational planting.
Vegetation composition in the community gold post-mining land and PT Panca Logam Nusantara in Bombana Regency, Southeast Sulawesi Province
Authors: Albasri  , Tuheteru F D , Husna  , Arif A , Basrudin  , Azimudin  , Berlian  , Erif L M 
Published: July 2021

Abstract
Gold mining activities have a huge impact on the environment in terms of physical, chemical and biological conditions, such as nutrient-poor soil, low soil pH and toxic soil due to high metal content, low water holding capacity, low organic matter content and unstable land conditions. Mining activities usually are operated by companies and communities. The purpose of conducting this study was to determine vegetation composition in gold post-mining land managed by the Community Gold Post-Mining Land and PT Panca Logam Nusantara in Bombana Regency, Southeast Sulawesi Province. This research was conducted in October 2020. The method used in this study was plotted path method, carried out by placing transects by purposive sampling technique. Transects were systematically arranged with a between-transects distance of 50 m. The vegetation analysis showed that 39 plant species were found in the gold post-mining land operated by a community with the highest INP value of 26.35% and Diversity Index Value of 2.85 for Sporobolus jacquemontii Kunth. In the gold post-mining land used by PT Panca Logam Nusantara, 26 plant species were found with the highest IVI 32.05% and Diversity Index Value of 2.55.
The role of local communities in developing potential areas for marine tourism
Authors: Kasim M , Oetama D , Bahar A , Alelo M , Wardani K K , Susandari H 
Published: July 2021

Abstract
Indonesia has many small islands. The potential of the small island as a regional tourist destination is excellent. Necessary resources such as coral reefs, seagrass and beautiful beaches are one of the tourist destinations. This study aims to determine the role of local communities in developing regional tourism potential. This research was conducted on one of the small islands in the Spermonde island cluster, South Sulawesi named Barrang Caddi Island. The methods used are site surveys, interviews and focus group discussions. The results obtained are that the excellent environment and coastal resources’ strength are beautiful for tourist destinations. Infrastructure is the main supporting facility for tourist visits. The community plays an important role in advancing its area as a tourist destination. Strengthening institutions in the village and maintaining a good culture are good drivers in marine tourism development.
Nanochitosan application on the production of less salt dried fish
Authors: Savitri I K E , Sianreshy P , Sormin R B D , Limon G V 
Published: July 2021

Abstract
The objective of this study was to produce less salt-dried fish by the treatment of chitosan nanoparticles added into saline solution during the salting process. The concentration of nano chitosan of 0.4%, 0.7%, and 1.0% was added into 20% saline solution combined with soaking time of 30 minutes, 60 minutes, and 90 minutes. Soaking fish in 20% saline solution for 3 hours in the salting process was performed as a comparison. Objective and subjective tests covers: salt content, total microbes (TPC), moisture and acid insoluble ash, and organoleptic were carried out to determine the characteristics of the final product. The results showed as follows: salt 13.4-16.71%; moisture 11.11-14.48 %; Acid Insoluble Ash 0.05-0.08%; Total Microbial 1.05x102 – 5.3x102 CFU/gram; and Organoleptic 8.2-8.73. Those values meet the requirements of the Indonesian National Standard. Based on the results, it can be concluded that 0.4% of nano chitosan in 20% saline solution combined with 30 minutes soaking time on salting process produce less salt dried fish successfully.
Exploration of the Impact of Combining Risk Phenotypes on the Likelihood of Alcohol Problems in Young Adults
Authors: Kampov-Polevoy Alexei , Bobashev Georgiy , Garbutt James C 
Published: July 2021

Abstract

Aims
We tested the hypothesis that high novelty seeking (NS—an externalizing trait), sweet-liking (SL—a phenotype that may reflect processing of hedonic stimuli) and initial insensitivity to the impairing effects of alcohol (SRE-A) act independently and synergistically to increase the likelihood of having alcohol-related problems in young adults.

Methods
A sample of 145 young adults, ages 18–26, balanced for gender and alcohol use disorders identification test (AUDIT) scores &lt;8 or ≥8 were selected from a prior sample. NS, SL and SRE-A were assessed along with AUDIT score and family history of alcoholism (FH). The effect of phenotypes and their interaction on the likelihood of alcohol problems was assessed.

Results
All three phenotypes contribute to the total AUDIT score. The best-fitting model explaining 35.8% of AUDIT variance includes all three phenotypes and an interaction between NS and SL/sweet-disliking (SDL) status. The addition of FH to the model explains an additional 4% of variance in both models. Classification and regression tree analysis showed that the main phenotype influencing AUDIT score is NS. The SL/SDL phenotype is a strong modifying factor for high NS. SRE-A was shown to be a weak modifier for individuals with low NS.

Conclusion
The evidence supports the hypothesis that the presence of multiple alcohol use disorders (AUD) risk phenotypes with different underlying neurobiological mechanisms within an individual (SL, NS and SRE-A) represents a higher likelihood for developing alcohol-related problems and may allow for a graded assessment of risk for AUD and offer the possibility for early intervention strategies.
Refget: standardized access to reference sequences
Authors: Yates Andrew D , Adams Jeremy , Chaturvedi Somesh , Davies Robert M , Laird Matthew , Leinonen Rasko , Nag Rishi , Sheffield Nathan C , Hofmann Oliver , Keane Thomas M 
Published: July 2021

Abstract

Motivation
Reference sequences are essential in creating a baseline of knowledge for many common bioinformatics methods, especially those using genomic sequencing.

Results
We have created refget, a Global Alliance for Genomics and Health API specification to access reference sequences and sub-sequences using an identifier derived from the sequence itself. We present four reference implementations across in-house and cloud infrastructure, a compliance suite and a web report used to ensure specification conformity across implementations.

Availability and implementation
The refget specification can be found at: https://w3id.org/ga4gh/refget.

Supplementary information
Supplementary data are available at Bioinformatics online.
Phenotypic variation in male Calopteryx splendens damselflies: the role of wing pigmentation and body size in thermoregulation
Authors: Laakso Linda K , Ilvonen Jaakko J , Suhonen Jukka 
Published: July 2021

Abstract
For ectothermic insects, their colour and size are important determinants of body temperature: larger bodies require more heat to reach a certain temperature, and dark colours absorb heat more efficiently. These dark colours are expressed using melanin, which has been intimately linked with the thermoregulatory capabilities of insects. Melanin is also linked with immune defence and is often used as a secondary sexual character in insects. There is a potential trade-off situation between thermoregulatory capabilities, immune defence and secondary sexual characters, all of which use melanin. Some Calopteryx damselflies, such as Calopteryx splendens, have melanin-based wing pigmentation that is sexually selected and drives intra- and interspecific territorial aggression. Our goal was to study experimentally how the wing pigmentation and body size of C. splendens males affect their thermoregulation and, especially, their ability to become active (hereafter, ‘activate’) after being cooled down. Our results were in line with our hypotheses, showing that individuals with larger wing spots had significantly faster activation times than those with smaller wing spots, and that individuals with larger body size had significantly slower activation times than those with smaller body size. Both variables showed an interaction and are therefore important in damselfly warm-up and activation. We discuss the role of wing pigmentation and thermoregulation in the behavioural patterns observed in Calopteryx species.
‘That Doesn’t Leave You’: Psychological Dirt and Taint in Prison Officers’ Occupational Cultures and Identities
Authors: Garrihy Joe 
Published: July 2021

Abstract
This article examines the conceptualization of prison officers as psychologically ‘dirty’. It defines the novel ‘psychological taint’ and taint management strategies in their occupational cultures. Drawing on ethnographic data, psychological taint’s three sources are identified as the psychological processes necessary to do their job, contamination through association with groups stigmatized as mentally unwell, and the pernicious effects of prison work. The article analyses the relationship between unaddressed anxiety provoked in prison work and the amplified salience of external threat in psychological taint. While advancing studies of occupational cultures and identities, psychological taint offers a constructive lens to analyse occupations across multiple fields. The presented implications address the nature of prison workplaces, punishment and the provision of mental health supports.
Animals in Disaster Social Work: An Intersectional Green Perspective Inclusive of Species
Authors: Fraser Heather , Taylor Nik , Riggs Damien W 
Published: July 2021

AbstractDisasters do not just affect humans. And humans do not only live with, care for or interact with other humans. In this conceptual article, we explain how animals are relevant to green and disaster social work. Power, oppression and politics are our themes. We start the discussion by defining disasters and providing examples of how three categories of animals are affected by disasters, including in the current COVID-19 pandemic. They are: companion animals (pets), farmed animals (livestock) and free-living animals (wildlife), all of whom we classify as oppressed populations. Intersectional feminist, de-colonising and green social work ideas are discussed in relation to disaster social work. We argue that social work needs to include nonhuman animals in its consideration of person-in-environment, and offer an expanded version of feminist intersectionality inclusive of species as a way forward.
AGAP2-AS1/miR-628-5p/FOXP2 feedback loop facilitates the growth of prostate cancer via activating WNT pathway
Authors: Zhao Xu , Liu Yajun , Luo Chenggong , Zuo Yali 
Published: July 2021

Abstract
Increasing studies have indicated the critical roles of long non-coding RNAs (lncRNAs) in the tumorigenesis of cancers. LncRNA AGAP2 antisense RNA 1 (AGAP2-AS1) can serve as an oncogenic role in some cancers, including prostate cancer (PCa). However, the underling mechanism of such lncRNA in PCa has not been fully studied. Therefore, it is meaningful to investigate the role and underlying mechanism of AGAP2-AS1 in PCa. AGAP2-AS1 was confirmed to be highly expressed in PCa cells. Functionally, AGAP2-AS1 silencing inhibited cell proliferation, migration, invasion and epithelial–mesenchymal transition process and induced apoptosis. According to mechanism assays, AGAP2-AS1 sponged miR-628-5p, which was found to restrain PCa cell growth. Besides, FOXP2 was identified as a target gene of miR-628-5p, and its expression was negatively regulated by miR-628-5p and positively modulated by AGAP2-AS1. Importantly, we found that FOXP2 could function as the upstream gene of AGAP2-AS1. Through rescue experiments, we discovered that FOXP2 up-regulation countered AGAP2-AS1 knockdown-mediated inhibition on PCa cell growth. Finally, it was found that AGAP2-AS1 could activate WNT pathway, and LiCl could reverse the influence of AGAP2-AS1 on PCa biological behaviors. To conclude, AGAP2-AS1/miR-628-5p/FOXP2 feedback loop facilitated PCa cell growth via activating WNT pathway.
Student–senior isolation prevention partnership: a Canada-wide programme to mitigate social exclusion during the COVID-19 pandemic
Authors: Naidu Sumana Christina , Persaud Monisha , Sheikhan Natasha Yasmin , Sem Geoffrey , O’Driscoll Victoria , Diamond Laura , Pitch Natalie , Dhingra Nitish , Nowak Dominik Alex , Kuluski Kerry 
Published: July 2021

Summary
Amidst the pandemic, Canada has taken critical steps to curb the transmission of the 2019 novel coronavirus disease (COVID-19). A key intervention has been physical distancing. Although physical distancing may protect older adults and other at-risk groups from COVID-19, research suggests quarantine and isolation may worsen mental health. Among older adults, social exclusion and social safety nets are social determinants of health (SDOH) that may be uniquely affected by the COVID-19 physical distancing measures. Health promotion programmes designed to reduce social exclusion and enhance social safety nets are one way to mitigate the potential mental health implications of this pandemic. The Student–Senior Isolation Prevention Partnership (SSIPP) is a student-led, community health promotion initiative that has scaled into a nation-wide effort to improve social connection among older adults. This initiative began with in-person visits and transformed into a tele-intervention guided by health promotion principles due to COVID-19. SSIPP continued to target the SDOH of social exclusion and social safety nets by pairing student volunteers with older adults to engage in weekly phone- and video-based interactions. Informed by the community partnership model by Best et al., SSIPP is built on the three orientations of empowerment, behaviour and organization, which are achieved through cross-disciplinary collaboration. This article reviews the importance of the adaptability of health promotion programmes, such as SSIPP during a pandemic, placing an emphasis on the lessons learned and future steps.
Development and Validation of a Risk Prediction Model for Second Primary Lung Cancer
Authors: Choi Eunji , Sanyal Nilotpal , Ding Victoria Y , Gardner Rebecca M , Aredo Jacqueline V , Lee Justin , Wu Julie T , Hickey Thomas P , Barrett Brian , Riley Thomas L , Wilkens Lynne R , Leung Ann N , Le Marchand Loïc , Tammemägi Martin C , Hung Rayjean J , Amos Christopher I , Freedman Neal D , Cheng Iona , Wakelee Heather A , Han Summer S 
Published: July 2021

Abstract

Background
With advancing therapeutics, lung cancer (LC) survivors are rapidly increasing in number. Although mounting evidence suggests LC survivors have high risk of second primary lung cancer (SPLC), there is no validated prediction model available for clinical use to identify high-risk LC survivors for SPLC.

Methods
Using data from 6325 ever-smokers in the Multiethnic Cohort (MEC) study diagnosed with initial primary lung cancer (IPLC) in 1993-2017, we developed a prediction model for 10-year SPLC risk after IPLC diagnosis using cause-specific Cox regression. We evaluated the model’s clinical utility using decision curve analysis and externally validated it using 2 population-based data—Prostate, Lung, Colorectal, and Ovarian Cancer Screening Trial (PLCO) and National Lung Screening Trial (NLST)—that included 2963 and 2844 IPLC (101 and 93 SPLC cases), respectively.

Results
Over 14 063 person-years, 145 (2.3%) ever-smoking IPLC patients developed SPLC in MEC. Our prediction model demonstrated a high predictive accuracy (Brier score = 2.9, 95% confidence interval [CI] = 2.4 to 3.3) and discrimination (area under the receiver operating characteristics [AUC] = 81.9%, 95% CI = 78.2% to 85.5%) based on bootstrap validation in MEC. Stratification by the estimated risk quartiles showed that the observed SPLC incidence was statistically significantly higher in the 4th vs 1st quartile (9.5% vs 0.2%; P &lt; .001). Decision curve analysis indicated that in a wide range of 10-year risk thresholds from 1% to 20%, the model yielded a larger net-benefit vs hypothetical all-screening or no-screening scenarios. External validation using PLCO and NLST showed an AUC of 78.8% (95% CI = 74.6% to 82.9%) and 72.7% (95% CI = 67.7% to 77.7%), respectively.

Conclusions
We developed and validated a SPLC prediction model based on large population-based cohorts. The proposed prediction model can help identify high-risk LC patients for SPLC and can be incorporated into clinical decision making for SPLC surveillance and screening.
Motif WFYY of human PrimPol is crucial to stabilize the incoming 3′-nucleotide during replication fork restart
Authors: Calvo Patricia A , Martínez-Jiménez María I , Díaz Marcos , Stojkovic Gorazd , Kasho Kazutoshi , Guerra Susana , Wanrooij Sjoerd , Méndez Juan , Blanco Luis 
Published: July 2021

AbstractPrimPol is the second primase in human cells, the first with the ability to start DNA chains with dNTPs. PrimPol contributes to DNA damage tolerance by restarting DNA synthesis beyond stalling lesions, acting as a TLS primase. Multiple alignment of eukaryotic PrimPols allowed us to identify a highly conserved motif, WxxY near the invariant motif A, which contains two active site metal ligands in all members of the archeo-eukaryotic primase (AEP) superfamily. In vivo and in vitro analysis of single variants of the WFYY motif of human PrimPol demonstrated that the invariant Trp87 and Tyr90 residues are essential for both primase and polymerase activities, mainly due to their crucial role in binding incoming nucleotides. Accordingly, the human variant F88L, altering the WFYY motif, displayed reduced binding of incoming nucleotides, affecting its primase/polymerase activities especially during TLS reactions on UV-damaged DNA. Conversely, the Y89D mutation initially associated with High Myopia did not affect the ability to rescue stalled replication forks in human cells. Collectively, our data suggest that the WFYY motif has a fundamental role in stabilizing the incoming 3′-nucleotide, an essential requisite for both its primase and TLS abilities during replication fork restart.
Relative frequency of drug-induced sleep disorders for 32 antidepressants in a large set of Internet user reviews
Authors: Natter Johan , Yokoyama Taïoh , Michel Bruno 
Published: July 2021

Abstract

Study Objectives
It is known that antidepressant drugs can induce sleep disorders in patients, but little data exist about high or low-risk molecules. The aim was to study the frequency of antidepressant drug-induced sleep disorders (DISD) by molecule.

Methods
77,391 patient comments for 32 antidepressant drugs were collected from drug review websites and screened for DISD. Association between drugs and nightmare disorder, restless legs syndrome, sleep paralysis, sleep terrors, sleep-related hallucinations, or sleep walking was expressed as relative proportion [proportional reporting ratio (PRR)]. A detailed analysis of the content of the dreams was also carried out.

Results
Amitriptyline, doxepin, fluvoxamine, mirtazapine, nortriptyline, trazodone, venlafaxine, and vilazodone were associated with a greater frequency of DISD compared to other antidepressants. Vilazodone heavily increased the probability of developing 5 of the 6 studied DISD (PRR 3.3 to 19.3) and mirtazapine increased the probability of developing 4 DISD (PRR 2.4 to 6.4). Bupropion and citalopram were associated with lower probabilities for 5 DISD (PRR 0.2 to 0.7). Sentiment analysis showed that patients described disturbing dreams for vilazodone or mirtazapine and strange but less negative dreams for bupropion, citalopram, or duloxetine.

Conclusions
Relative frequencies of sleep disorders were obtained for a vast panel of antidepressant drugs through an original analysis of user’s drug reviews on drug rating websites. Our results could guide clinicians in the appropriate choice of antidepressant drugs for high DISD-risk patients in need of such treatment. These results may however be cautiously taken, considering the uncertain reliability and generalizability of web-based data.